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* [svn-r11798] Purpose:Albert Cheng2005-12-161-0/+17
| | | | | | | | | | | Feature. Description: Modified it so that it can be compiled outside of HDF5 library as a standalone program. e.g., mpicc -DSTANDALONE prog.c. Platforms tested: Tested in Red storm and heping.
* [svn-r11788] Purpose:Albert Cheng2005-12-121-2/+5
| | | | | | | | | | | | | | | | | | Patch. Description: Copper would fail with a message of 0032-113 Out of memory in routine unknown, task 0 when run with 3 processes and size 1MB in MPI-IO tests. It seems to be a copper MPIO error. Solution: Reduced the upper bound of default write size to 1/2MB (but tests only go to 1/4MB) for now, pending permenant fix from Copper. Platforms tested: Copper.
* [svn-r11786] Purpose:Leon Arber2005-12-111-18/+18
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Minor bug fixes. Description: 1. Changed free() calls to HDfree() 2. Corrected behavior of -m command-line parameter 3. Changed return value to always return 0. Solution: 2. The -m flag tells the test to run only the MPI IO tests. However, it would incorrectly make the test run both the MPI and POSIX tests (same as the default behavior). 3. This test is known to fail on many platforms, and, even on those platforms where it usually passes, it is known to suffer transient failures (especially with small test file sizes). It's outcome is also very dependent on the filesystem on which the testfile is created. Corrected the program to always return success, so that it doesn't interfere with the daily tests. The motivation for this is that this test has nothing to do with the HDF library and is an auxiliary test. Failures in t_posix_complaint do not necessarily mean that parallel HDF will fail, but simply indicate something to look into, especially on new platforms. This is now an "output only" test, and any errors will be only be visible in the output. Platforms tested: copper (all of these were minor changes) Misc. update:
* [svn-r11783] Purpose:Albert Cheng2005-12-111-16/+32
| | | | | | | | | | | | | | | | bug fix. Description: Fixed the segmentation fault errors in modi4, copper and tg-login. It was due to the misuse of trying to realloc a pointer returned by getenv_all. (not supposed to.) Also rearranged the code so that option is checked first, then check with environment variable, then use default setup. This saves the need to do realloc at all. Platforms tested: Heping, modi4, shanti, copper (copper showed a different error now.)
* [svn-r11778] Purpose:Leon Arber2005-12-081-7/+9
| | | | | | | | | | | | | | | | | Bug fix. Description: For some strange reason, getopt() does not appear to be defined in unistd.h on colonelk when the source is compiled with -D_POSIX_SOURCE. Solution: Inserted some extern's for the missing variables to make the compiler happy. Platforms tested: colonelk, copper Misc. update:
* [svn-r11777] Purpose:Leon Arber2005-12-081-6/+23
| | | | | | | | | | | | | | | | | | | | Feature Description: Added blurb about future todo's for this test. Added support for HDF5_PARAPREFIX to determine the directory where the test file is stored. Solution: Used getenv_all to get the value of HDF5_PARAPREFIX. Note that, if a command-line parameter is passed to the program to specify a path, it will override the value of HDF5_PARAPREFIX. Platforms tested: copper, colonelk Misc. update:
* [svn-r11776] Purpose:Leon Arber2005-12-083-35/+41
| | | | | | | | | | | | | | Added t_posix_compliant to the rest of the build and patched up minor compile bugs/warnings encountered on other platforms. Description: It seems that <getopt.h> needs to be included to get the file to build, even though the man page seems to indicate that <unistd.h> should be sufficient. Solution: Platforms tested: copper, colonelk, sol
* [svn-r11772] Purpose:Leon Arber2005-12-081-0/+847
| | | | | | | | | | | | | | | | | | | Feature Description: Added posix compliance tests. Solution: These tests do increasingly complicated sets of writes followed by reads. POSIX standards say that any read that can be proven to occur after a write must include the data in that write. These tests attempt to verify whether the underlying filesystem and i/o layer provide such guarantees. Platforms tested: copper, colonelk, red storm 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-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)
* [svn-r11612] Purpose:James Laird2005-10-271-1/+1
| | | | | | | | | | | | | Bug fix Description: Failed parallel tests now cause make to exit with an error. Solution: Edited config/conclude.am to throw an error if parallel test programs fail. Platforms tested: heping, modi4
* [svn-r11602] Purpose:James Laird2005-10-241-3/+0
| | | | | | | | | | | | Bug fix Description: Removed detection of pdb from configure.in as a corollary to removal of pdb2hdf5 tool. Platforms tested: mir, modi4
* [svn-r11576] Purpose:MuQun Yang2005-10-181-152/+261
| | | | | | | | | | | | | | | | | | Adding comments and code clean-up for code that tests collective irregular selection Description: For better maintenance in the future, Add comments to list the number for (start,count,block,stride) for irregular selection for effective testing collective chunk IO feature development in the future. Solution: Platforms tested: Linux 2.4(heping), mostly comments, no need to test on other platforms. Misc. update:
* [svn-r11573] Purpose:James Laird2005-10-171-0/+1
| | | | | | | | | | | | | | | | | | | | Bug fix Description: Changed configure.in to use an environment variable TR to set the path to the tr utility. Solution: There are two kind of tr on Solaris with slightly different syntax. HDF5's configure relies on the "standard" tr. Traditionally, HDF5ers have needed to make sure that the "right" tr was found before the wrong one in their path; now they can use an environment variable. Platforms tested: mir, shanti, sol Misc. update: Forgot to update release notes. Off to do that now.
* [svn-r11572] Purpose:MuQun Yang2005-10-172-208/+294
| | | | | | | | | | | | | | | Code clean-up for collective regular chunk IO tests. Description: Add descriptions for each tests for future maintenance. Solution: Platforms tested: Mostly comments, No need to use h5committest. heping(linux 2.4) Misc. update:
* [svn-r11566] Purpose:James Laird2005-10-141-0/+2
| | | | | | | | | | | | | | | | | | | | | | | | | | Makefile bug fix Description: Previously, automake didn't output rules to build perform/mpi-perf or the test/gen_* programs. Now these can be built by typing 'make mpi-perf' (or 'make foo') or by configuring with --enable-build-all. Solution: Automake doesn't like having rules for programs it doesn't build. Tricked it by having these programs built "sometimes"--whenever the user enables --build-all. This should be used mostly for testing and to ensure that these helper programs compile. ***IMPORTANT*** These programs do *not* currently compile. When --enable-build-all is used (not the default), gen_new_fill fails because it uses an old API. This is an existing "bug" that has simply been exposed by this checkin. Platforms tested: sleipnir, modi4, sol Misc. update:
* [svn-r11483] Purpose:Leon Arber2005-09-291-7/+7
| | | | | | | | | | | | | | | | bug fix. Description: The complex derived datatype test assumed that the fill value would be 0. This is not the case on all systems. Solution: Modified the test to check against a known value in the outbuf array, instead of the fill value. Platforms tested: heping and MCR. Misc. update:
* [svn-r11481] Purpose:Leon Arber2005-09-291-1/+1
| | | | | | | | | | | | | | | bug fix. Description: Fixed typo in a comment. The word "file" was supposed to be "fill." The explanation of how the complex derived datatype test works is much clearer now. Solution: Platforms tested: minor change. Misc. update:
* [svn-r11478] Purpose:Albert Cheng2005-09-291-8/+7
| | | | | | | | | | | | | | | | bug fix. Description: When a parallel test script test fails, make would continue because the way it was setup inside a for loop. Fixed it by issuing an exit 1 inside the loop. There was also a typo error in the newer command comparision that it must be $${chkname} in order to be valid. Also, the test script itself was not checked in the newer lists. All fixed. Platforms tested: h5committested and also hand tested in heping pp mode.
* [svn-r11470] Purpose:John Mainzer2005-09-271-3/+3
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Repair synchronization bug in the metadata cache in PHDF5 Also repair numerous other bugs that surfaced in testing the bug fix. Description: While operations modifying metadata must be collective, we allow independant reads. This allows metadata caches on different processes to adjust to different sizes, and to place the entries on their dirty lists in different orders. Since only process 0 actually writes metadata to disk (all other processes thought they did, but the writes were discarded on the theory that they had to be collective), this made it possible for another process to modify metadata, flush it, and then read it back in in its original form (pre-modification) form. The possibilities for file corruption should be obvious. Solution: Make the policy that only process 0 can write to file explicit, and visible to the metadata caches. Thus only process 0 may flush dirty entries -- all other caches must retain dirty entries until they are informed by process 0 that the entries are clean. Synchronization is handled by counting the bytes of dirty cache entries created, and then synching up between the caches whenever the sum exceeds an (eventually user specified) limit. Dirty metadata creation is consistent across all processes because all operations modifying metadata must be collective. This change uncovered may bugs which are repaired in this checkin. It also required modification of H5HL and H5O to allocate file space on insertion rather than on flush from cache. Platforms tested: H5committest, heping(parallel & serial) Misc. update:
* [svn-r11459] Purpose:MuQun Yang2005-09-221-2/+3
| | | | | | | | | | | | | | | | | | A bug fix Description: MPI_Status_IGNORE is treated as a NULL pointer for mpich 1.2.4 or similar MPI packages. It caused segmentation fault for MPI derived datatype test. Solution: Define MPI_STATUS status, and pass &status into MPI_File_read and MPI_File_write. Platforms tested: too trivial to test. Misc. update:
* [svn-r11458] Purpose:Albert Cheng2005-09-221-13/+30
| | | | | | | | | | | | | | | | | | Improvement. Description: The test may hang if there are system failures that some processors are not working. Solution: Added the ALARM calls to limit all tests be done with the default alarm time. So, even if a process is hanging, the ALARM signal would terminate the process. Platforms tested: tg-login2 of NCSA. Misc. update:
* [svn-r11450] Purpose:Pedro Vicente Nunes2005-09-211-3/+9
| | | | | | | | | | | | | | | | | | bug fix Description: the MPI_File_get_size returns a different value in one of the tests in Windows comment the code and not run the test in windows a ULL suffix on the harcoded return VRY return number is needed on AIX Solution: Platforms tested: Windows AIX Misc. update:
* [svn-r11448] Purpose:Pedro Vicente Nunes2005-09-212-5/+11
| | | | | | | | | | | | | | | | | | | new features Description: add support for compiling the library and testphdf5 in Windows Solution: Platforms tested: Linux AIX Solaris Windows VC6 Misc. update:
* [svn-r11446] Purpose:James Laird2005-09-201-2/+3
| | | | | | | | | | | Bug fix Description: Massaged the newer script and config/conclude.am to make SX6 happy. Platforms tested: SX6, sol, mir
* [svn-r11431] Purpose:Albert Cheng2005-09-181-2/+3
| | | | | | | | | | | | | | | | | New feature. Description: Added the time command to the make check target to report time usage of the execute of each test and test scripts. This gives us some idea how long each test takes and some vague idea it is compute bound or not. powerpc-ibm-aix5.x: Change $RUNPARALLEL default setting to allow it being invoked by the time command. Platforms tested: h5committested.
* [svn-r11421] Purpose:James Laird2005-09-161-4/+11
| | | | | | | | | | | | | | | Feature Description: Added H5_CFLAGS, etc. to 1.7 branch. Now compilation flags can be put in H5_*FLAGS and they'll be used when building hdf5 but not in h5cc. Platforms tested: mir, sleipnir, modi4 Misc. update:
* [svn-r11420] Purpose:James Laird2005-09-161-0/+2
| | | | | | | | | | | | | | | | | Bug fix Description: Disabled C++ shared libraries for Sun Workshop compiler. Solution: This bug only seems to happen when using the -xarch=v9 flag to compile in 64-bit mode, but disabling shared libraries entirely for this compiler is an easier fix (I don't know how to detect 64 bit mode from the command line). The framework for disabling shared libraries for other C++ compilers is in place. Platforms tested: sol, mir, sleipnir, modi4
* [svn-r11418] Purpose:James Laird2005-09-151-0/+2
| | | | | | | | | | | | | | | | Bug fix/feature Description: Disabled shared libraries for a number of Fortran compilers that don't support them. This allows other compilers to support shared Fortran libraries. Solution: Added a conditional, SHARED_FORTRAN_CONDITIONAL, which is true if Fortran supports shared libraries. It is set in configure.in. Platforms tested: mir, sleipnir, colonelk, heping
* [svn-r11411] Purpose:James Laird2005-09-132-4/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix Description: Building with --disable-static seems to have been broken on several platforms. Fixed this. Configure will now disable shared libraries automatically when using pgf90 or when building on Cygwin. Solution: To avoid errors when using shared libraries with pgf90 (which I had not realized were compiler-specific), I had manually set convenience libraries to use the -static linking flag. Apparently, this is not necessary, and caused these libraries to be created as empty archives when --disable-static was used. Also, some libraries were including other libraries, which was not necessary. I also fixed code in configure.in to correctly detect whether shared or static libraries are enabled, and moved code that disables shared libraries to before libtool is created (rather than editing libtool after the fact). Despite repeated warnings that only one shared library can be linked at a time, I have yet to have shared libraries break the linking of tests on any system. We'll see if the Daily Tests turn up anything. Platforms tested: mir (fortran, C++), sleipnir (C++), modi4 (fortran, C++, parallel), sol (fortran, C++), cygwin
* [svn-r11349] Purpose:Albert Cheng2005-09-051-25/+40
| | | | | | | | | | | | | | | | | | | | | | | | | | | Bug fix. Description: Some tests showed the filesize was not as expected. But the error was intermittent. This was a racing condition as some processes finish extend_chunked_dataset() sooner than others and return to the main body which proceeds to call the next test which also uses the same test data file and alters it. That messes up the "slower" processes which then see unexpected filesize. Also, the routine create_chunked_dataset() which creates test data file actually was executed by all processes. That is wrong. Solution: Added a barrier at the end of extend_chunked_dataset to make sure all processes are done with the test data file before returning. Changed create_chunked_dataset such that only one process would create the test data file. The rest does nothing but just wait for it to finish. Platforms tested: Tested in TG-NCSA in which the errors were detected. Misc. update:
* [svn-r11340] Purpose:Albert Cheng2005-09-021-3/+1
| | | | | | | | Big data set test was default off and rarely tested. Changed it to default on so that it gets tested. Platforms tested: Heping PP and Copper pp.
* [svn-r11339] Purpose:Albert Cheng2005-09-021-59/+43
| | | | | | | | | | | | | | | Bug fix #281 Description: Committed a wrong copy in the previous checkin. Solution: Checked in the right one and did some code cleanup, rearrangment. Platforms tested: heping pp. Misc. update:
* [svn-r11323] Purpose:Albert Cheng2005-08-312-6/+2
| | | | | | | | | | | | | | | | tidy up. Description: MPE option created *.clog file whenever it is executed in MPI. The cleanup of *.clog files were done in individual Makefile.in. Often, it is forgotten. Solution: Moved the cleaning of *.clog files to CHECK_CLEANFILES in commence.am so that it is applied whenever check-clean is called. Platforms tested: heping pp using MPE.
* [svn-r11319] Purpose:James Laird2005-08-301-1/+1
| | | | | | | | | | | | | | | | | | | | | | | Bug fixes Description: This checkin fixes an occasional error on kelgia on sol during distclean. It also causes test scripts to depend properly on the programs they're supposed to be testing. Solution: The kelgia bug was due to some files being cleaned by automake and manually. Removed the manual cleaning in src/Makefile.am. Test script dependencies now need to be specified manually, since the makefile can't guess what they test from their name. Currently all test scripts in a given directory have a single list of dependencies--this was easy and seems to be sufficient. These dependencies are listed in the SCRIPT_DEPEND variable in the Makefile.am. Platforms tested: heping, mir, modi4, sol Misc. update:
* [svn-r11312] Purpose:Albert Cheng2005-08-305-3/+202
| | | | | | | | | | | | | | | | | | Bug #281 Description: A dataset created in serial mode with H5D_ALLOC_TIME_INCR allocation setting was not extendible, either explicitly by H5Dextend or implicitly by writing to unallocated chunks. This was because parallel mode expects the allocation mode be H5D_ALLOC_TIME_INCR only. Solution: Modified library to allocate more space when needed or directed if the file is opened by parallel mode, independent of what the dataset allocation mode is. Platforms tested: Heping pp.
* [svn-r11303] Purpose:Albert Cheng2005-08-261-24/+15
| | | | | | | | | | | | minor tidy up. Description: Changed both test programs and test scripts to use the same suffixes (.chkexe and .chklog). Changed from .log to .chklog to avoid running into potential conflicts by other "things" (e.g., config.log). Tested: Heping.
* [svn-r11294] Purpose:MuQun Yang2005-08-251-52/+3
| | | | | | | | | | | | | | | bug fix Description: The previous version always tests with mpi-IO driver even when mpi-posix driver is set. Solution: Add the option to test mpi-posix driver for the first round collective chunk IO test. Platforms tested: IRIX64, AIX 5.1, Linux 2.4 Misc. update:
* [svn-r11292] Purpose:Albert Cheng2005-08-231-3/+13
| | | | | | | | | | | | | | | | | | | | | | | | | | "bug fix" Description: The test_mpio_derived_dtype() often hangs when fails. So it was not run by default to avoid hanging the daily tests or confusing users. But then new system or new codes in collective chunk fails while one can't tell for sure if it is because of the complicated derived type failures or something else. Solution: Changed the logic so it is skipped only if it is known that the complicated MPI derived type does not work. (This is indicated by macro H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS NOT defined. Platforms tested: heping pp (where it is tested by default). Modi4 pp (where it is SKIPPED by default.) I also forced modi4 to test it and modi4 said it actually is working and should change the setting of H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS to working?!! Misc. update:
* [svn-r11291] Purpose:Albert Cheng2005-08-231-33/+32
| | | | | | | | | | | | | | | | | | Code cleaning. Description: The block of code that is conditioned by the H5_MPI_COMPLEX_DERIVED_DATATYPE_WORKS and manipulates the return code of test_mpio_derived_dtype, does not really belong in main. If return code of test_mpio_derived_dtype needs to be adjusted, it should be done in test_mpio_derived_dtype. Solution: Moved that block of code test_mpio_derived_dtype. Platforms tested: heping PP. Misc. update:
* [svn-r11245] Purpose:Quincey Koziol2005-08-139-525/+525
| | | | | | | | | | | | | | | | | | | | 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-r11232] Purpose:MuQun Yang2005-08-111-0/+2
| | | | | | | | | | | | | | Modified collective chunk Io test Description: One test(collective chunk IO test 4) is no longer needed. Comment out first. The code should be cleaned up later. Solution: Platforms tested: Misc. update:
* [svn-r11214] Purpose:Albert Cheng2005-08-082-18/+8
| | | | | | | | bug fix Description: Previous commit contained an extra bin (t_chunk_alloc) that is not ready yet. It was a mistake. Removed it.
* [svn-r11213] Purpose:Albert Cheng2005-08-081-7/+2
| | | | | | | | | | | | | | | | | | | Bug fix and improvement. Description: The test output were not displayed for parallel tests. The serial tests output were always displayed whether the test was actually ran this time or not. Solution: Moved the display of test output inside the target where the actual tests are run. Platforms tested: Tested in heping using pp and fortran.
* [svn-r11208] Purpose:Albert Cheng2005-08-082-63/+81
| | | | | | | | | | | | | | | | | | | Bug fix and code minor cleanup. Description: The attempt to redirect stderr together to the log files were done in the wrong order such that stderr output goes to where stdout WAS. Fixed that. Code minor cleanup--use shell variables to hold the name of the log file and the test instead of generating them repeatedly. This makes easier code reading, less crowded and avoid typos. Only conclude.in is changed. The Makefile.in changes are all derived from automake. Platforms tested: h5committested.
* [svn-r11185] Purpose:James Laird2005-08-022-11/+14
| | | | | | | | | | | | | | | Makefile feature Description: 'make check-clean' now cleans *.h5 files created by tests as well as .log and .chkexe files. Solution: check-clean is now a separate target in its own right, which cleans less than mostlyclean (check-clean < mostlyclean < clean < distclean). Platforms tested: mir, heping, modi4 (serial and parallel)
* [svn-r11181] Purpose:Albert Cheng2005-08-021-1/+0
| | | | | | | removed a debug print statment. Platforms tested: heping (pp)
* [svn-r11179] Purpose:James Laird2005-08-011-7/+15
| | | | | | | | | | | | | | | | | | | Feature: check-clean target Description: 'make check-clean' cleans up output files from tests. Solution: Tests create foo.chkexe and foo.log files. Scripts create foo.chksh and foo.logsh files. 'make check-clean' will clean these files up so that the tests can be re-run. Also suppressed some not-very-useful output of Makefiles when it would echo commands. Platforms tested: mir, sleipnir, modi4 Misc. update:
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