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* [svn-r12784] Pedro Vicente Nunes2006-10-193-103/+261
| | | | | | | | | | | | | | | | | Fixes for bugs 676, 228 676: both h5repack and h5diff use H5Dread. In the case of a "big" dataset, use read/write by hyperslabs the same way h5dump uses. An arbitrary value of 1GB was defined for "big", i.e, if the dataset is greater than 1GB, then read/write by hyperslabs 228: use the file type in read/write by default. A new switch -n was introduced if the user wants to use a native type, which was the previous use by default. Added a new test for h5repack that repacks a 1GB dataset Tested: heping (serial, parallel), sol, copper
* [svn-r12741] Added support for direct I/O to check-vfd. The direct VFD is ↵James Laird2006-10-101-2/+2
| | | | | | | | | | only tested if it is enabled. Added Direct VFD status to the configure summary. Removed a line left over from pablo support. Oops!
* [svn-r12736] Description:Quincey Koziol2006-10-095-190/+194
| | | | | | | | | | | | | | | | | | | Add "use the latest format" support for dataspace object header encode/ decode routines and clean up format a bit for the latest format (new to 1.8.x releases) Remove storing 'perm' parameter for array datatypes in memory and the file, and add test to make certain that if any user applications are attempting to store them, we get some reports back. (Should be unlikely, since the RefMan says that the parameter is not implemented and is unsupported). Carry those changes into the tests, etc. Clean up a bunch more compiler warnings. Tested on: FreeBSD/32 4.11 (sleipnir) w/threadsafe Linux/32 2.4 (heping) w/FORTRAN & C++ Linux/64 2.4 (mir) w/enable-1.6-compat
* [svn-r12715] Incorporated a user-submitted patch to better detect the 'tr' ↵James Laird2006-10-031-0/+1
| | | | | | | | | | | | utility and quote its arguments. Also checks for the 'socket' library on Solaris. If this patch passes the Daily Tests and makes the user happy, I'll port it back to the 1.6 branch. Tested on mir and sol.
* [svn-r12700] Alert:Quincey Koziol2006-10-022-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r12687] reverted back some changes that inadvertedely added some ↵Pedro Vicente Nunes2006-09-264-187/+177
| | | | | | | | output to the parallel part of h5diff tested : heping parallel
* [svn-r12678] bug fixPedro Vicente Nunes2006-09-254-177/+187
| | | | | the number of atribute differences was not added to the total sum of differences
* [svn-r12634] Purpose:Albert Cheng2006-08-282-12/+5
| | | | | | | | | | | | Code cleanup. Description: Removed argc and argv from the function arguments of h5tools_get_fapl() and h5tools_fopen(). They were used to call MPI_Init() which was no longer needed. Tested: heping (serial and parallel).
* [svn-r12608] Checked in External Link C examples.James Laird2006-08-221-1/+1
| | | | | | | | Since these examples need to follow filesystem paths, the Makefiles need to create directories in the examples directory; added this to the Makefile.am. Tested on Windows, mir, juniper
* [svn-r12584] Mentioned VFD in test output to make it easier to tell which ↵James Laird2006-08-172-8/+7
| | | | | | | | | VFD is being used when a test is run. Running reconfigure also regenerated error header files (because someone edited them manually?).
* [svn-r12534] Purpose:Albert Cheng2006-08-041-42/+24
| | | | | | | | | | | | | | | | | | | | | | | | Bug fixes. Description: There were MPI_init and MPI_finalize calls in the code of h5tools_fopen in parallel mode. But if a non-MPI tool is invoke to open a non-existing file, it tries to open the non-existing file with different VFD and eventaully came to try with the MPIO or the MPIPOSIX vfd, then it would try to do MPI_Init which would fail in the MPI environment if the a.out was not launched by MPI properly. Solution: MPI_Init and MPI_Finalize in general should be called by the MPI application, not called by a library subroutine as in the manner that was done here. Removed the MPI_init and MPI_Finalize calls. Used MPI_Initialized to verify if this has been launched as an MPI application in the proper manner before attempting to use the MPIO or the MPIPOSIX VFD to open the file. Tested: In tg-ncsa parallel, where it had failed explicitly and also in Heping, using both serial and parallel mode.
* [svn-r12528] Added User-Defined links to the library.James Laird2006-08-025-83/+230
| | | | | | | | | | | | | | Users can create external links using H5L_create_external(). These links point to an object in another HDF5 file. Users can alter the behavior of external links or create new kinds of links by registering callbacks using the H5L interface. Added tests, tools support, etc. Also a number of other, minor changes have been made (some restructuring of the H5L interface, for instance). Additional documentation and examples are forthcoming.
* [svn-r12519] Fixed "make check-vfd"James Laird2006-07-311-2/+3
| | | | | | | | | | "make check-vfd" will now run all tests in the test directory with different file drivers (at least, all of those tests that use the testing framework's FAPL). Tests that fail will be skipped. This is not a perfect fix, but is better than nothing. Along with this change, check-vfd should be added to the Daily Tests.
* [svn-r12518] h5dump binary output:Pedro Vicente Nunes2006-07-311-1/+0
| | | | | | | 1. changed the -F flag option names to "BE and "LE" for big and little endian 2. added a more verbose usage message for these options 3. add a new test 4. add a make clean instruction to *.bin
* [svn-r12513] Pedro Vicente Nunes2006-07-283-6/+168
| | | | | new feature h5dump binary output. use little and big endian type conversions
* [svn-r12504] Pedro Vicente Nunes2006-07-271-145/+163
| | | | | | | | | | | | bug fix calling h5tools_get_fapl running the mpio driver caused H5FD_pl_copy to fail silently in some conditions. a MPI call was made before MPI_Init. solution: corrected the MPI call to be made after MPI_Init and added error return conditions to H5FD_pl_copy and h5tools_get_fapl tested on copper parallel, mir, shanti
* [svn-r12474] Quincey Koziol2006-07-151-25/+25
| | | | | | | | Clean up some compiler warnings. Tested on: FreeBSD 4.11 (sleipnir) Too minor to require h5committest
* [svn-r12444] Purpose:Pedro Vicente Nunes2006-06-282-2/+6
| | | | | | | | | | | | | | | | | | | | new feature Description: added support for h5dump to dump binary data using the file type format added one test to the test script that tests this Solution: Platforms tested: mir shanti copper Misc. update:
* [svn-r12440] Purpose:Quincey Koziol2006-06-276-598/+598
| | | | | | | | | | | 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-r12437] Purpose:Pedro Vicente Nunes2006-06-262-11/+470
| | | | | | | | | | | | | | | | | | | | | | new feature. h5dump output of binary data Description: a new switch -b FILE_NAME that dumps the contents of memory data to file FILE_NAME in binary form new program binread.c that reads the contents of this file and outputs it to stdout added a test for the h5dump shell script that does a run of -b the binread.c program reads the data used in this run, usage is ./binread FILE_NAME Solution: Platforms tested: linux solaris AIX Misc. update:
* [svn-r12431] Purpose:James Laird2006-06-212-18/+9
| | | | | | | | | | | | | | Configuration feature Description: 'make install' now tests both static and shared libraries if both are installed. Solution: Previously, shared libraries were only tested when static libraries were not installed. Also cleaned up line in commence.am that was including HL library in all Makefiles. Platforms tested: mir (Makefile change only)
* [svn-r12411] Purpose:James Laird2006-06-131-0/+1
| | | | | | | | | | | | | | Bug fix - bugzilla #552 Description: On Cray X1, trying to use : as an argument confused the system. Solution: Added a test in configure to see if : as an argument is bad. If so, skipped the test. Platforms tested: mir, Cray X1 (change to configure only)
* [svn-r12358] Purpose:Albert Cheng2006-05-191-1/+0
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix. Description: The ${TR}, though avoid the error, is inconvenient. It is needed because configure.in use the char range in the style of 'a-z'. The other style of '[a-z]' is more commonly accepted by all tr but autoconf tends to strip away [], making the syntax rather clumsy. Solution: Learned from autoconf that it avoids the use of character range by just spell all the letters out. Changed our tr commands to use those variables defined by autoconf. Also removed the definition of ${TR} since it will cause inconsistancy when autoconf also use plain 'tr' in its generated code. The Makefile.in are changed because the elimination of ${TR} from configure triggered its removal from all Makefil.in. That is okay because ${TR} is not used at all in Makefile. Platforms tested: h5committested. (sol failed to connected). also tested in shanti using both /usr/ucb/tr and /bin/tr (the bad one before.) Misc. update: Updated both INSTALL and RELEASE files.
* [svn-r12304] Purpose:Pedro Vicente Nunes2006-04-261-3/+6
| | | | | | | | | | | | | | | bug fix Description: the diff region output was done in verbose mode Solution: avoid it in verbose Platforms tested: linux Misc. update:
* [svn-r12303] Purpose:Pedro Vicente Nunes2006-04-261-1/+1
| | | | | | | | | | | | | | new feature Description: modified the test case for region points, so that there is not an ordered sequence of points that differ, but one with gaps Solution: Platforms tested: linux Misc. update:
* [svn-r12297] Purpose:Pedro Vicente Nunes2006-04-252-148/+279
| | | | | | | | | | | | | | | | | new feature Description: added support for the printout of dataset region references differences added a new test for this merged the h5diff generator of test files into a single file Solution: Platforms tested: linux 32, 64 solaris Misc. update:
* [svn-r12295] Purpose:James Laird2006-04-211-3/+3
| | | | | | | | | | | | | | | | | | | Several bug fixes Description: Added config file for Cray X1 (previous file was misnamed) Simplified some code in hyperslab.c test that seemed to have been confusing compiler on Cray X1. Fixed typo in config/commence.am Cleaned up hl/src/Makefile.am Solution: All four fixes should be straightforward. The failure on Cray was very difficult to debug, but involved arithmetic errors. This change seems to fix it. Platforms tested: heping, copper, sol, some Cray X1 (more testing when system comes back up)
* [svn-r12254] Purpose:Quincey Koziol2006-04-145-36/+53
| | | | | | | | | | | | | | Anti-feature Description: Revert changes to H5G_stat_t struct, to make it compatible with the 1.6.x branch again. The information that was added to the H5G_stat_t struct will be reported through other API routines. Platforms tested: FreeBSD 4.11 (sleipnir) w/C++ Linux 2.4/64 (mir) w/C++ & Fortran Solaris 2.9 (shanti)
* [svn-r12229] Purpose:Pedro Vicente Nunes2006-04-122-4/+6
| | | | | | | | | | | | | | | | | | | | | new feature Description: 1) separated the HL library into "public" and "private" header files, with the same caracteristics as the basic library 2) added the public headers to hdf5.h (with a conditional include macro, defined in configure.in) 3) added the path to HL in all Makefile.am 's , because of the inclusion in hdf5.h Solution: Platforms tested: linux 32, 64 AIX solaris with fortran and c++ (one packet table example fails) Misc. update:
* [svn-r12205] Purpose:Pedro Vicente Nunes2006-04-063-4/+4
| | | | | | | | | | | | | | | | new feature Description: added the printout of the compression ratio for filters in h5repack, after the filter name, obtained with H5Dget_storage_size, before and after applying the filter Solution: Platforms tested: linux solaris AIX Misc. update:
* [svn-r12199] Purpose:Pedro Vicente Nunes2006-04-041-2/+2
| | | | | | | | | | | | | | | | | | | bug fix Description: the percent error calculation in h5diff using double precision floating point were causing different results on the release and debug versions of Visual Studio version 6, due to a compiler bug Solution: used single precision (float) Platforms tested: windows linux solaris AIX Misc. update:
* [svn-r12171] Purpose:Pedro Vicente Nunes2006-03-281-12/+23
| | | | | | | | | | | | | | | | | | | | | | | bug fixes Description: h5dump/h5ls were not displaying long doubles correctly Solution: 1) the print datatype functions were incorrectly testing for the valid return value from H5Tequal, (TRUE), causing the display of an incorrect name of a dataype in error cases from H5Tequal 2) h5tools_print_str did not have a case for native long double 3) added a file generator for a long double dataset 4) added one script test for the long double data (commented , some sytems don't have a native long double match, and the output differs) 5) added a vms file and h5dump script test Platforms tested: linux 32, 64 solaris AIX Misc. update:
* [svn-r12149] Purpose:James Laird2006-03-231-7/+1
| | | | | | | | | | | | | | | | Bug fix Description: Previous checkin did a bad thing; 'make clean' failed in example directories. Solution: Fixed commence.am so that examples no longer break, and fixed a mistake in conclude.am. Platforms tested: heping (minor makefile change) Misc. update:
* [svn-r12146] Purpose:Pedro Vicente Nunes2006-03-231-16/+77
| | | | | | | | | | | | | | | | | bug fix Description: percent relative error was done using integer arythmetic; use floating point instead added the case for unsigned long long integer to float conversion Solution: Platforms tested: linux (32,64) AIX solaris Misc. update:
* [svn-r12143] Purpose:James Laird2006-03-231-0/+4
| | | | | | | | | | | | | | Bug fix Description: make check-clean didn't clean results of example tests Solution: Fixed Makefiles so that check-clean recurses into example directories. Also a little Makefile cleanup. Platforms tested: mir, modi4, heping, copper
* [svn-r12134] Purpose:Pedro Vicente Nunes2006-03-226-1377/+1366
| | | | | | | | | | | | | | | | | | bug fix Description: 1) added a more explainative usage message 2) the percent relative error for the integer type (division) was being done using integer arythmetic; use floating point arythmetic instead 3) added a new test for integer percent Solution: Platforms tested: linux (32,64) AIX solaris Misc. update:
* [svn-r12126] Purpose:Pedro Vicente Nunes2006-03-214-308/+260
| | | | | | | | | | | | | | | | | bug fix Description: the compare check for the datatype sign was not done in the correct place, causing invalid comparisons to be made Solution: put it on the correct place Platforms tested: linux 32, 64 AIX Misc. update:
* [svn-r12124] Purpose:Pedro Vicente Nunes2006-03-201-39/+24
| | | | | | | | | | | | | | | | | bug fix Description: 1) the compare flag test was not being put in a correct place, making comparisons attempts that were not supposed to be done 2) some duplicate warnings were being made Solution: eliminate the duplicate warnings, put the if compare flag on the correct place Platforms tested: linux 32, 64 solaris Misc. update:
* [svn-r12112] Purpose:Pedro Vicente Nunes2006-03-172-3042/+3042
| | | | | | | | | | | | | | | | | | bug fixes Description: 1) the option logic for the print of long types was done incorrectly (extra lines of code that were not supposed to be there) 2) the print of loong long types was incorrect Solution: 1) removed the incorrect code 2) made a long long cast on the printf call Platforms tested: linux (32 and 64) solaris Misc. update:
* [svn-r12094] Purpose:Pedro Vicente Nunes2006-03-151-5/+8
| | | | | | | | | | | | | | | bug fix Description: long long type was being incorrectly printed Solution: added a long_long cast to print function Platforms tested: linux Misc. update:
* [svn-r12092] Purpose:Pedro Vicente Nunes2006-03-151-1/+5
| | | | | | | | | | | | | | | | bug fix, new features Description: when comparing links , the output for the number of differences found was not being done Solution: print it add 3 more tests that test the output of differences for 1) groups 2) datatypes 3) links Platforms tested: linux Misc. update:
* [svn-r11886] Purpose:Quincey Koziol2006-01-2310-322/+136
| | | | | | | | | | | | | Code cleanup Description: Check in some of the code cleanups from working on the external link support. (This doesn't include any of the external link features) Platforms tested: FreeBSD 4.11 (sleipnir) Mac OSX.4 (amazon) Linux 2.4
* [svn-r11879] Purpose:Pedro Vicente Nunes2006-01-111-229/+232
| | | | | | | | | | | | | | | | | | | | bug fix a call to sprintf was giving incorrect output in the system Fedora Core 4 with gcc 4.0 (not supported by us, but user reported) Solution: the call was using the same buffer for source and destination variables, used different ones Platforms tested: linux (mir) solaris (sol) Misc. update:
* [svn-r11741] Purpose:James Laird2005-11-181-6/+16
| | | | | | | | | | | | | | | | | Bug fix Description: Fortran type generation was broken in two ways. Fixed both. Solution: Firstly, there were a couple of path problems. Fixed a typo and specified the full path of a file. Secondly, the dependencies weren't right when building with HDF5-specific commands (make lib, make check-s, etc.). Tweaked dependencies to fix the problem. Platforms tested: mir, modi4, sleipnir
* [svn-r11738] Purpose:James Laird2005-11-181-0/+4
| | | | | | | | | | | | | | | | | | | Configure feature Description: Added 'make trace' target. Solution: Added tracing to 1.7. This was done automatically in 1.6, but left out of 1.7 until now (oops!). Tracing in 1.7 only happens manually, when the user types 'make trace.' Tracing automatically requires more framework than it's worth. I also fixed a couple of tracing bugs and ran trace. Platforms tested: mir, sleipnir, modi4 Misc. update:
* [svn-r11737] Purpose:James Laird2005-11-171-0/+8
| | | | | | | | | | | | | | | | | | | | | | | | Bug fix Description: Before this checkin, 'gmake check-s' would fail if there was a file in the current directory named 'check-s'. This is fixed under gmake (not sure how to fix for other makes). Solution: check, progs, install, etc. are what gmake calls "phony" targets, which means that no file should be created. These targets can be specified by a line of the form .PHONY: check progs install ... Automake adds this line for targets it knows about, but HDF5 has a lot of custom rules. This checkin adds a .PHONY line for those rules. I believe that only gmake recognizes the .PHONY line (at least, pmake doesn't seem to), but a partial solution is better than none. This error should occur very rarely anyway (the user has to manually create files with names like 'build-check-s' or '_test'). Platforms tested: mir, sleipnir, modi4
* [svn-r11736] Purpose:Albert Cheng2005-11-161-4/+0
| | | | | | | | | | | | | | Cleanup. Description: Removed reference to H5_HAVE_VSNPRINTF and the corresponding abort since we do not use the home-grown potentially memory wacking version any more. Platforms tested: heping. Misc. update:
* [svn-r11730] Purpose:Quincey Koziol2005-11-161-58/+60
| | | | | | | | | | | | | | | | | Bug fix Description: Correct use of H5Gget_objinfo() which recent compact group checkins exposed: we were attempting to follow dangling soft links. Solution: Don't follow links for H5Gget_objinfo() when initializing object tables for h5dump. Platforms tested: Solaris 2.8 w/64-bit enabled Linux 2.4 FreeBSD 4.11 (sleipnir)
* [svn-r11712] Purpose:Quincey Koziol2005-11-151-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | 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-r11646] Purpose:James Laird2005-10-311-4/+14
| | | | | | | | | | | | | | | | | | Bug fix/feature Description: Added support for -shlib in h5fc and h5c++. Made check-install use -shlib when only shared libraries have been installed. Solution: h5fc and h5c++ didn't recognize -shlib. Stole code from h5cc to link against shared libraries. When static libraries are disabled, the examples Makefiles will automatically use the -shlib option to link against shared libraries. Thus, --disable-static and make check-install should work together. Platforms tested: heping(disable-static, enable-static, fortran, c++), modi4 (disable-static, fortran, c++, parallel, enable-static)
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