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* [svn-r17775] Purpose:Mike McGreevy2009-10-281-1/+1
| | | | | | | | | | | | | | h5cc link-line reordering Description: Re-ordered flags in h5cc such that LDFLAGS appears after hdf5 library include path. This is to ensure third party library locations don't interfere with locating the correct version of hdf5 library. Tested: passed daily tests in 1.8 branch (as verified by Larry just now).
* [svn-r17715] Fixed to exit failure if no command option is given.Albert Cheng2009-10-211-1/+1
| | | | Tested: Jam
* [svn-r17703] Bug fix: (1192)Albert Cheng2009-10-214-30/+32
| | | | | | | Changed exit(1) to exit(EXIT_FAILURE) and exit(0) to exit(EXIT_SUCCESS) for better coding. Tested: jam.
* [svn-r17700] Bug fix: (1192)Albert Cheng2009-10-211-19/+19
| | | | | | | | Comment says Error exit code is -1 but actual code use 1. Changed it to EXIT_FAILURE (1) and exit(0) to exit(EXIT_SUCCESS) for better coding. Tested: jam.
* [svn-r17697] Bug fix: (1192)Albert Cheng2009-10-202-3/+3
| | | | | | | | Error exit code of -1 is illegal (exit code is unsigned). Changed it to EXIT_FAILURE (1). Also changed exit(0) to exit(EXIT_SUCCESS) for better coding. Tested: jam.
* [svn-r17680] Use absolute comparison for use-system-epsilon and default option.Peter Cao2009-10-191-2/+2
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* [svn-r17646] 1. tools/h5repack/h5repack_main.c: accept string for strategy ↵Vailin Choi2009-10-158-202/+379
| | | | | | | | | | | | | | | | | | instead of a number 2. tools/h5stat/h5stat.c: clean up and activate options as stated in usage 3. tools/h5stat/testfiles/*.ddl: modified according to the latest output -This line, and those below, will be ignored-- M tools/h5repack/h5repack_main.c M tools/h5stat/testfiles/h5stat_newgrat.ddl M tools/h5stat/testfiles/h5stat_filters.ddl M tools/h5stat/testfiles/h5stat_help1.ddl M tools/h5stat/testfiles/h5stat_help2.ddl M tools/h5stat/testfiles/h5stat_tsohm.ddl M tools/h5stat/testfiles/h5stat_filters-F.ddl M tools/h5stat/h5stat.c
* [svn-r17616] Purpose:Mike McGreevy2009-10-0821-104/+181
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | CFLAGS overhaul Description: Modified the way configure handles CFLAGS. (note: all changes also apply to FCFLAGS, CXXFLAGS, CPPFLAGS, and LDFLAGS). 1. The configure process will now always preserve a user's CFLAGS environment variable setup. Any additional flags necessary for compilation added at configure time will be passed into the Makefiles as AM_CFLAGS, which is an automake construct to be used in addition to CFLAGS. This will allow a user to have the final say, as CFLAGS will always appear later in the compile line than AM_CFLAGS. Additionally, setting CFLAGS during make will no longer completely erase all flags set by configure, since they're maintained in AM_CFLAGS. 2. Additionally, where possible, flags previously being assigned directly into CFLAGS (and thus propagating into h5cc) have now been redirected into H5_CFLAGS, so they're used ONLY for compiling hdf5, and not embedded into the h5cc wrapper script as well. *Note that H5_CFLAGS ultimately is assigned into AM_CFLAGS for use in the Makefiles. Complete description of changes and build process will be included in a Configure Document that Elena and I are working on. 3. Removed unsupported config files. This includes: config/dec-osf* config/hpux11.00 config/irix5.x config/powerpc-ibm-aix4.x config/rs6000-ibm-aix5.x config/unicos* 4. Modified configure summary to display additional values. Specifically, appropriate AM_* variables are being shown, as well as H5_FCFLAGS and H5_CXXFLAGS, which were for some reason not already present. Tested: - H5committest - Tested on all THG / NCSA machines, using several combinations of the more prominent configure options (c++, fortran, szip, threadsafe, parallel, et cetera). (Thanks to Quincey for rysnc testing setup!) - With regards to new automated testing, anything *necessary* for compilation will be caught by the daily tests as it stands now. (i.e., if LDFLAGS is not properly set when szip is used, linking will fail). Additionally, with regards to which flags get into h5cc, if any *necessary* flags have been improperly removed, then daily tests should fail during make installcheck. Additional machine-specific desired behaviors and/or checks may have to be set up separately within the daily tests, so this is something to work on.
* [svn-r17606] Code Cleanup:Albert Cheng2009-10-075-74/+23
| | | | | | | | TFLOPS machine has retired long ago. Removed all code specific for its support. Test: h5committested.
* [svn-r17603] Bug fix:Albert Cheng2009-10-061-2/+3
| | | | | | | | | | | The ph5diff tests printout incorrectly reporting they are running h5diff when it actually is running ph5diff. Fixed. Tested: Jam (parallel), linew (serial) No H5committest since it is a shell script and Jam tests both serial and parallel h5diff for Linux while Linew tests Big endian platform.
* [svn-r17582] Description:Quincey Koziol2009-10-0224-227/+776
| | | | | | | | | | | | | | | | | | | | | Bring changes from file free space branch back to the trunk. *yay!* 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 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17566] Fix for Bug 1562. H5DSis_attached needed to account for ↵Allen Byrne2009-10-012-2/+6
| | | | | | | | | 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-r17553] Description:Quincey Koziol2009-09-298-67/+53
| | | | | | | | | | | | | | | | | | | | | | Bring general fixes/improvements from file_free_space 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/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 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-r17518] Description:Quincey Koziol2009-09-242-8/+6
| | | | | | | | | | | | | | | | | | | | | | Bring most of Vailin's changes to the fixed array data structure back to the trunk, including new regression test for data structure. 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/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 10.5.8 (amazon) in debug mode Mac OS X/32 10.5.8 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17492] Moved printing of brackets before printing contents of region ↵Allen Byrne2009-09-172-38/+16
| | | | | | | | references. Changed default Error handling init to successful as all error macros set the return to failure Tested: local linux
* [svn-r17479] Fixed obvious error : changed talign.c to talign on TEST_PROG ↵Allen Byrne2009-09-151-1/+1
| | | | assignment.
* [svn-r17477] Corrected use of ERROR macro H5E_LEAVE to H5GOTO_DONE.Allen Byrne2009-09-141-6/+9
| | | | Tested: local linux
* [svn-r17476] Update test file that was refactored.Allen Byrne2009-09-141-1/+32
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* [svn-r17475] Added error handling to h5dump and region reference handling ↵Allen Byrne2009-09-1410-561/+1038
| | | | | | functions in the tools lib. Bring back from NPOESS. Added missing tests to h5dump test script for region references. Tested: local linux
* [svn-r17466] " Use strict equality as defaultPeter Cao2009-09-1118-404/+185
| | | | | | " Use "--use-system-epsilon" for system EPSILON " Use "-p" or "-d" for whatever user's choice of epsilon " Use "-p 0" or "-d 0" for strict equality (same as default)
* [svn-r17456] Added dataspace type check for region, changed dimension_break ↵Allen Byrne2009-09-082-234/+233
| | | | | | | processing to use boolean. Tested: local linux
* [svn-r17455] Description:Quincey Koziol2009-09-081-2/+2
| | | | | | | | | | Correct a 'hsize_t *' to 'hsize_t' and vice versa. Tested on: 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 (too minor to require h5committest)
* [svn-r17454] Bug fix. (Daily test failure).Albert Cheng2009-09-071-2/+2
| | | | | | | Generic function name is used but that would fail when v16API is used. Changed the H5Dcreate() and H5Acreate() to v18 names as H5Dcreate2() and H5Acreate2(). tested: jam (regular and --with-default-api-version=v16).
* [svn-r17450] Bring h5dump single subsetting selection and region reference ↵Allen Byrne2009-09-0411-1168/+3345
| | | | | | changes from NPOESS Tested: local linux smirom
* [svn-r17393] Description:Quincey Koziol2009-08-201-8/+8
| | | | | | | | | | | | | | | | | | | | | Bring back more changes from the file free space branch to the 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 (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 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-r17365] Description:Quincey Koziol2009-08-151-91/+91
| | | | | | | | | | | | | | | | | | | | Final merge of changes from sblock_mdc branch back to trunk. The superblock is now managed by the metadata cache. 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 (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 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-r17345] Purpose:Mike McGreevy2009-08-1211-527/+1133
| | | | | | | | | | | | | | | | | | | | | | | | 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-r17313] Description:Quincey Koziol2009-08-1011-87/+64
| | | | | | | | | | | | | | | | | | | | | Bring back various minor code cleanups from the file free space branch 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 (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 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-r17295] Specified HDTarray_create and HDCreate as HDTarray_create2 and ↵Allen Byrne2009-08-031-2/+2
| | | | | | HDCreate2 in gent_array8 function as was done in other gent_arrayX functions. Fixes 1.6 compatibility mode argument errors. Tested: linux
* [svn-r17289] Added test targeted for bug 1520, which was fixed last week. ↵Allen Byrne2009-07-314-37/+71
| | | | | | The test generates an array datatype of ints larger than the display buffer. The bug was exposed when the buffer was reallocated. Tested: linux
* [svn-r17268] Description:Quincey Koziol2009-07-303-9/+9
| | | | | | | | | | | Bring r17266 from 1.8 branch to trunk: Clean up various compiler warnings from IRIX64 build Tested on: Mac OS X/32 (amazon) debug & production (yes, I know it's not an IRIX64 system :-) Too minor to require h5committest
* [svn-r17254] Fixed Bug 1563 - h5diff and Infinity Peter Cao2009-07-287-5/+43
| | | | Added test cases
* [svn-r17228] Purpose:Mike McGreevy2009-07-2318-12/+108
| | | | | | | | | | | | | | | | | | | | | | | Fix BZ #1583 Description: The --enable-static-exec flag was broken. Configure was adding the -all-static linker flag to an environment variable which was subsequently never used. (looks like it was used in 1.6 Makefile.ins, but never moved to 1.8's Makefile.ams when we added automake support). To fix, I've added this environment varibale to the link lines of all the tools. Now, when --enable-static-exec is invoked, it will correctly generate statically linked executables in the installed bin directory. Tested: I've tested manually to ensure that the generated execs are static when the flag is used and dynamic when not. I've also tested when szip is used, as this was a use case mentioned in the bug report. Also: ran full tests with make check on jam and smirom for good measure.
* [svn-r17211] The function h5tools_str_append() incorrectly used the trio of ↵Allen Byrne2009-07-211-35/+33
| | | | | | functions: va_start(), HDvsnprintf(), and va_end(). When the boundary of the string buffer was reached and resized, the HDvsnprintf() function recalled without the other two functions in the code loop. This usage exposed bug 1520 by a user. Tested: linux
* [svn-r17177] In H5Odtype.c, the decoding function used to mark the datatype ↵Raymond Lu2009-07-132-4/+4
| | | | | | | | | | as on disk (see bug #1585). I changed it to undefined and let the caller functions decide the location of the datatype. For H5Tdecode, it should mark the datatype as in memory. For other callers like H5Dopen or H5Aopen, they should makr it as on disk. Tested it on jam, smirom, linew.
* [svn-r17155] Description:Quincey Koziol2009-07-031-0/+72
| | | | | | | | | | | | | | | | | | | | | | | Bring r17154 from 'revise_chunks' branch to trunk: Add fixed array data structure. (For initial use as a chunk index) 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/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 10.5.7 (amazon) in debug mode Mac OS X/32 10.5.7 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode
* [svn-r17081] Disable hanging invalid files test.Larry Knox2009-06-181-2/+3
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* [svn-r17076] bug fix: h5repack was not applying a requested contiguous ↵Pedro Vicente Nunes2009-06-173-20/+41
| | | | | | | | layout for a dataset with filters added a test to the C program test (not to the script), that verifies the layout and filters tested: windows (development and tested manually) , linux, solaris
* [svn-r17075] Implemented nowrap option (Bug 811) equivalent to h5ls tool. ↵Allen Byrne2009-06-172-4/+18
| | | | | | Also updated usage output. Tested: linux
* [svn-r17058] added some "dummy" declarations for d_statusPedro Vicente Nunes2009-06-162-0/+5
| | | | | | | | | | | | | | | | | | | | | | | | | | | | this error home/hdftest/snapshots-hdf5/current/tools/lib/h5tools_ref.c:126: undefined reference to `d_status' happens because the original developer of h5tools_ref.c declared these 2 variables in that source file extern char *progname; extern int d_status; this means that all programs that use this source file (typically all tools) will have to define these 2 variables, even if they are *not* used. examples const char *progname = "h5jam"; int d_status = EXIT_SUCCESS; "progname" is usually used to print the program name in the usage, and "d_status" is just a return value of the tool, usually. I was wondering about removing these 2 declarations from h5tools_ref.c extern char *progname; extern int d_status; and define those variables on each tool if they are only needed (it seems to me that only h5ls and h5dump actually "need" them) tested: smirom parallel
* [svn-r17052] Add a run to the h5repack shell script to read a family filePedro Vicente Nunes2009-06-153-3/+53
| | | | | | | | The file used for input is located in the common source tools for testfiles, in tools/testfiles Modified the h5repack shell script to read files from this location (h5repack reads its input files from a dedicated testfiles location in h5repack/testfiles) Changed the h5diff open file call to use h5tools_fopen, so that it can open all file drivers Tested: windows, linux, solaris
* [svn-r16991] change messages of -c optionPedro Vicente Nunes2009-05-289-14/+15
| | | | tested: windows, linux
* [svn-r16964] bug fix: the phrase "Not comparable" was not being printed for ↵Pedro Vicente Nunes2009-05-202-2/+2
| | | | | | the case of different classes tested: windows, linux
* [svn-r16844] Description:Mike McGreevy2009-04-222-0/+6
| | | | | | | | | | | | Adding dependency to h5repack test script. h5repack.sh needs h5repacktst to run first. Tested: Problem only appeared on Glory, but tested the dependence manually on jam by trying to run only the script and checking that it first ran the h5repacktst test program.
* [svn-r16810] added the words "Not comparable" in the not comparable messagesPedro Vicente Nunes2009-04-2012-23/+23
| | | | tested: linux
* [svn-r16807] Purpose: Fix bug 1533Neil Fortner2009-04-201-1/+1
| | | | | | | | | | | Description: Previously, there was no versioning for H5Z_class_t. This prevented applications written for 1.6 using custom filters from being able to use the 1.8 library. There is now an H5Z_class1_t and H5Z_class2_t to enable compatibility. H5Zregister is *not* versioned, it determines which version of the struct has been passed in by the value of the first field (id or version, both are ints). Tested: jam, linew, smirom (h5committest), jam (--with-default-api-version=v16)
* [svn-r16800] Purpose: Fix bug 1516Neil Fortner2009-04-204-21/+384
| | | | | | | | | | | Description: h5repack previously would not take named datatypes into consideration when copying datasets and attributes. This would cause extra anonymous datatypes in the target file at best, and cause errors halfway through the repacking at worst. h5repack should now always handle named datatypes correctly. Named datatypes are also now converted to the native type when -n is given. Tested: jam, linew, smirom (h5committest)
* [svn-r16792] Description:Mike McGreevy2009-04-2011-44/+44
| | | | | | | | | | | | - 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-r16785] added missing test and compare cases inside compounds for nanPedro Vicente Nunes2009-04-182-673/+1022
| | | | tested: linux
* [svn-r16698] Purpose: Fix bug 503Neil Fortner2009-04-081-1/+1
| | | | | | | | | Description: Changed Skip list package to use a deterministic skip list. This allows the skip list package to avoid calling rand() and srand(), even on machines without rand_r(). There is no longer a p-value or maximum level for skip lists. Tested: jam, smirom, linew (h5committest)
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