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| -rw-r--r-- | release_docs/RELEASE.txt | 568 |
1 files changed, 287 insertions, 281 deletions
diff --git a/release_docs/RELEASE.txt b/release_docs/RELEASE.txt index b1088e9..23fc6c9 100644 --- a/release_docs/RELEASE.txt +++ b/release_docs/RELEASE.txt @@ -5,19 +5,19 @@ HDF5 version 1.9.234 currently under development INTRODUCTION This document describes the differences between HDF5-1.9.0 and -HDF5 1.9.x snapshot, and contains information on the platforms -tested and known problems in HDF5-1.9.x. +HDF5 1.9.x snapshot, and contains information on the platforms +tested and known problems in HDF5-1.9.x. For more details check the HISTORY*.txt files in the HDF5 source. -Links to HDF5 1.9.x source code can be found on The HDF Group's +Links to HDF5 1.9.x source code can be found on The HDF Group's development FTP server at the following location: ftp://ftp.hdfgroup.uiuc.edu/pub/outgoing/hdf5/snapshots -User documentation for the snapshot can be accessed directly at this location: +User documentation for the snapshot can be accessed directly at this location: http://www.hdfgroup.uiuc.edu/HDF5/doc_dev_snapshot/H5_dev/ For more information, see the HDF5 home page: - + http://www.hdfgroup.org/HDF5/ If you have any questions or comments, please send them to the HDF Help Desk: @@ -41,6 +41,10 @@ New Features Configuration: ------------- + - Java JNI library API wrappers and supporting files added as HDF_JAVA language + option. Both configure and CMake disable this option by default. + HDFFV-9552 (ADB 2016/02.28) + - CMake minimum is now 3.1.0. (ADB 2015/11/14) - cmakehdf5: configure options added to enable or disable the building of different API's and testings. See "cmakehdf5 --help" for details. (AKC - 2014/12/09 HDFFV-8932) @@ -77,20 +81,20 @@ New Features - Added a new configure option, "--enable-unsupported", which can be used to stop configure from preventing the use of unsupported configure option combinations, such as c++ in parallel or parallel - HDF5 with threadsafe. Use at your own risk, as it may result in a - library that won't compile or run as expected! + HDF5 with threadsafe. Use at your own risk, as it may result in a + library that won't compile or run as expected! (MAM - 2010/11/17 - Bug 2061) - PHDF5 changed to use "mpiexec", instead of mpirun, as the default MPI applications startup command as defined in the MPI-2 definition, section 4.1. (AKC - 2010/6/11 - Bug 1921) - Configure now adds appropriate defines for supporting large (64-bit) files on all systems, where supported, by default, instead of only linux. - This largefile support is controllable with the --enable-largefile + This largefile support is controllable with the --enable-largefile configure option. This is replacing the linux-specific --enable-linux-lfs - option, which has been removed from configure. + option, which has been removed from configure. (MAM - 2010/05/05 - 1772/1434) - Upgraded versions of autotools used to generate configuration suite. - We now use Automake 1.11.1, Autoconf 2.65, and Libtool 2.2.6b. + We now use Automake 1.11.1, Autoconf 2.65, and Libtool 2.2.6b. MAM 2010/04/15. - Added the xlc-* and mpcc_r-* BASENAME patterns to be recognized as IBM compilers so that the ibm compiler options can be added properly. This @@ -99,16 +103,16 @@ New Features - Configuration suite now uses Automake 1.11 and Autoconf 2.64. MAM 2009/08/11. - Changed default Gnu fortran compiler from g95 to gfortran since - gfortran is more likely installed with gcc now. -AKC 2009/07/19- - - Added libtool version numbers to generated c++, fortran, and + gfortran is more likely installed with gcc now. -AKC 2009/07/19- + - Added libtool version numbers to generated c++, fortran, and hl libraries. MAM 2009/04/19. - Regenerated Makefile.ins using Automake 1.10.2. MAM 2009/04/19. - Added a Make target of check-all-install to test the correctness of installing via the prefix= or $DESTDIR options. AKC - 2009/04/14 - Configuration suite now uses Libtool 2.2.6a. MAM 2008/10/24 - - Configuration suite now uses Autoconf 2.61, Automake 1.10.1. - MAM 2008/05/05. + - Configuration suite now uses Autoconf 2.61, Automake 1.10.1. + MAM 2008/05/05. - The new configure option "--disable-sharedlib-rpath" disables embedding the '-Wl,-rpath' information into executables when @@ -128,7 +132,7 @@ New Features not be defined when H5_NO_DEPRECATED_SYMBOLS is defined. (DER - 2015-04-30, HDFFV-1074) - + - The library can load filter libraries dynamically during runtime. Users can set the search path through environment variable HDF5_PLUGIN_PATH and call H5Pset_filter to enable a dynamic filter. (SLU - 2013/04/08) @@ -137,13 +141,13 @@ New Features (NAF - 2013/02/05) - The library now supports the data conversion from enumeration to numeric (integer and floating-point number) datatypes. See Issue 8221. - (SLU - 2012/10/23) + (SLU - 2012/10/23) - The data sieve buffer size was for all the datasets in the file. It could waste memory if any dataset size is smaller than the sieve buffer size. Now the library picks the smaller one between the dataset size and the sieve buffer size from the file access property. See Issue 7934. (SLU - 2012/4/2) - - I added a new parameter of object access property list to the function + - I added a new parameter of object access property list to the function H5Rdereference (Issue 2763). It's called H5Rdereference2 now. The former H5Rdereference function has been deprecated to H5Rdereference1. (SLU - 2011/7/18) @@ -154,10 +158,10 @@ New Features H5Pget_elink_file_cache_size(), and H5Fclear_elink_file_cache(). (NAF - 2011/02/17) - Removed all old code for Metraowerks compilers, bracketed by - __MWERKS__). Metraowerks compiler is long gone. (AKC - 2010/11/17) + __MWERKS__). Metraowerks compiler is long gone. (AKC - 2010/11/17) - Added support for threadsafety on windows using the windows threads - library. Use the HDF5_ENABLE_THREADSAFE option in CMake while on a - windows platform to enable this functionality. This is supported on + library. Use the HDF5_ENABLE_THREADSAFE option in CMake while on a + windows platform to enable this functionality. This is supported on Windows Vista and newer Windows operating systems. (MAM - 2010/09/10) - When a mandatory filter failed to write data chunks, the dataset couldn't close (bug 1260). The fix releases all resources and closes @@ -166,7 +170,7 @@ New Features order H5T_ORDER_MIXED has been added specifically for compound datatype and its derived type. Please see bug #1934. (SLU - 2010/8/23) - Improved performance of the chunk cache by avoiding unnecessary b-tree - lookups of chunks already in cache. (NAF - 2010/06/15) + lookups of chunks already in cache. (NAF - 2010/06/15) - Greatly improved performance of extending a dataset with early allocation. (NAF - 2010/03/24 - 1637) - Added support for filtering densely stored groups. Many of the API @@ -209,7 +213,7 @@ New Features Parallel Library: ----------------- - Add H5Pget_mpio_no_collective_cause() function that retrive reasons - why the collective I/O was broken during read/write IO access. + why the collective I/O was broken during read/write IO access. (JKM - 2012/08/30 HDFFV-8143) - Special Collective IO (IO when some processes do not contribute to the IO) and Complex Derived Datatype MPI functionalities are no longer @@ -218,10 +222,10 @@ New Features behaviors. Older MPI implementations that do not allow for these functionalities can no longer by used by HDF5. (MAM - 2011/07/08). - Modified parallel tests to run with arbitrary number of processes. The - modified tests are testphdf5 (parallel dataset access), t_chunk_alloc + modified tests are testphdf5 (parallel dataset access), t_chunk_alloc (chunk allocation), and t_posix_compliant (posix compliance). The rest of the parallel tests already use in the code the number of processes - available in the communicator. (CMC - 2009/04/28) + available in the communicator. (CMC - 2009/04/28) Fortran Library: ---------------- @@ -269,7 +273,7 @@ New Features h5dget_access_plist_f h5iis_valid_f h5pset_chunk_cache_f - h5pget_chunk_cache_f + h5pget_chunk_cache_f (MSB - 2009/04/17) @@ -314,75 +318,75 @@ New Features match the search path. HDFFV-7989 (ADB - 2013/08/12). - h5dump: Added optional arg 0 to -A, which excludes attributes from display. HDFFV-8134 (ADB - 2013/08/01). - - h5dump: Fixed displaying compression ratio for unknown or user-defined + - h5dump: Fixed displaying compression ratio for unknown or user-defined filters. HDFFV-8344 (XCAO 2013/03/19) - h5dump: Changed UNKNOWN_FILTER to USER_DEFINED_FILTER for user defined filter. HDFFV-8346 (XCAO 2013/03/19) - - h5dump: Added capability for "-a" option to show attributes containing "/" - by using an escape character. For example, for a dataset "/dset" - containing attribute "speed(m/h)", use "h5dump -a "/dset/speed(\/h)" + - h5dump: Added capability for "-a" option to show attributes containing "/" + by using an escape character. For example, for a dataset "/dset" + containing attribute "speed(m/h)", use "h5dump -a "/dset/speed(\/h)" to show the content of the attribute. See details at HDFFV-7523 - (PC -- 2012/03/12) + (PC -- 2012/03/12) - h5dump: Added ability to apply command options across multiple files using a wildcard in the filename. Example; "h5dump -H -d Dataset1 tarr*.h5". HDFFV-7876 (ADB - 2012/03/12). - h5repack: Improved performance for big chunked datasets (size > 128MB) - when used with layout (-l) or compression (-f) option. - It would perform much better prior to the improvement, - especially for cases that chunk dimentions looks like + when used with layout (-l) or compression (-f) option. + It would perform much better prior to the improvement, + especially for cases that chunk dimentions looks like "1024x5x1" (compare to "1x5x1024"). When bigger numbers are toward front and smaller number is toward back in chunk dimentions. HDFFV-7862 (JKM - 2012/03/01) - h5dump: Added new option --no-compact-subset. This option will not - interpret the '[' character as starting the compact form of - subsetting. This is useful when the "h5dump error: unable to + interpret the '[' character as starting the compact form of + subsetting. This is useful when the "h5dump error: unable to open dataset "datset_name"" message is output because a dataset name contains a '[' character. HDFFV-7689 (ADB - 2012/01/31) - - h5dump: Corrected schema location: - <hdf5:HDF5-File - xmlns:hdf5="http://hdfgroup.org/HDF5/XML/schema/HDF5-File" - xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" - xsi:schemaLocation="http://hdfgroup.org/HDF5/XML/schema/HDF5-File + - h5dump: Corrected schema location: + <hdf5:HDF5-File + xmlns:hdf5="http://hdfgroup.org/HDF5/XML/schema/HDF5-File" + xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" + xsi:schemaLocation="http://hdfgroup.org/HDF5/XML/schema/HDF5-File http://www.hdfgroup.org/HDF5/XML/schema/HDF5-File.xsd"> (ADB - 2011/08/10) - h5diff: Added new level for -v (verbose) option. The new levels are - 1 and 2. So -v1 and -v2 can be specified to view more - information about attributes differences. + 1 and 2. So -v1 and -v2 can be specified to view more + information about attributes differences. Bug#2121 (JKM 2011/3/23) - - h5dump: Added new option --enable-error-stack. This option will display + - h5dump: Added new option --enable-error-stack. This option will display error stack information in the output stream. This is useful when the "h5dump: Unable to print data" message is output. (ADB - 2011/02/24) - h5diff: Add a new flag --exclude-path. Specified path to an object will be excluded from comparing the two files or two groups. If group - is specified all the member objects will be excluded. + is specified all the member objects will be excluded. (JKM - 2010/09/16). - h5ls: Add new flag --no-dangling-links. (refer to --help for details) - (JKM - 2010/06/15) + (JKM - 2010/06/15) - h5ls: Add new flag --follow-symlinks. (refer to --help for details) (JKM - 2010/05/25) - h5diff: Add new flag --no-dangling-links. (refer to --help for details) - (JKM - 2010/02/10) + (JKM - 2010/02/10) - h5diff: Add new flag --follow-symlinks. (refer to --help for details) - (JKM - 2010/01/25) + (JKM - 2010/01/25) - h5diff: fix for displaying garbage value on LE machine for BE data. (JKM - 2009/11/20) - h5dump: subsetting now allows default for count. Also trailing ; in short form - can be omitted after last specified value. + can be omitted after last specified value. (ADB - 2009/09/04) - - h5dump/h5ls: now can display data in region references - using new -R, --region flag. + - h5dump/h5ls: now can display data in region references + using new -R, --region flag. (ADB - 2009/09/04) - h5diff: new flag, -c, --compare, list objects that are not comparable. (PVN - 2009/4/10 - 1368) - h5diff new flag, -N, --nan, avoids NaNs detection. (PVN - 2009/4/10) - h5dump correctly specifies XML dtd / schema urls (ADB - 2009/4/3 - 1519) - h5repack now handles group creation order. (PVN - 2009/4/2 - 1402) - - h5dump: added a printing of the compression ratio of uncompressed and compressed + - h5dump: added a printing of the compression ratio of uncompressed and compressed sizes for cases where compression filters are present. (PVN - 2008/05/01) - - h5dump: added an option to allow a user defined formatting string for printf + - h5dump: added an option to allow a user defined formatting string for printf regarding floating point numbers. (PVN - 2008/05/06) - - h5dump: support for external links, display the object that the external link + - h5dump: support for external links, display the object that the external link points to. (PVN - 2008/05/12) - h5repack: add a userblock to an HDF5 file during the repack. (PVN - 2008/08/26) - h5repack: add 2 options that call H5Pset_alignment in the repacked file. (PVN - 2008/08/29) @@ -394,22 +398,22 @@ New Features - h5diff: added support for long double (PVN - 2008/10/28) - h5dump: binary output defaults to NATIVE with -b optionally accepting the form of binary output (NATIVE, FILE, BE, LE). (PVN - 2008/10/30) - - h5diff: return 1 for file differences when both file graphs differ by any object. + - h5diff: return 1 for file differences when both file graphs differ by any object. Error return code was changed to 2 from -1. (PVN - 2008/10/30) - - h5import: TEXTFPE (scientific format) was deprecated. Use TEXTFP + - h5import: TEXTFPE (scientific format) was deprecated. Use TEXTFP instead (PVN - 2008/10/30) - - h5repack: When user doesn't specify a chunk size, h5repack now defines a default - chunk size as the same size of the size of the hyperslab used to read the chunks. - The size of the hyperslabs are defined as the size of each dimension or a - predefined constant, whatever is smaller. This assures that the chunk + - h5repack: When user doesn't specify a chunk size, h5repack now defines a default + chunk size as the same size of the size of the hyperslab used to read the chunks. + The size of the hyperslabs are defined as the size of each dimension or a + predefined constant, whatever is smaller. This assures that the chunk read fits in the chunk cache. (PVN - 2008/11/21) - - h5diff: h5diff treats two INFINITY values different. Fixed by checking (value==expect) - before call ABS(...) at h5diff_array.c This will make that (INF==INF) is true + - h5diff: h5diff treats two INFINITY values different. Fixed by checking (value==expect) + before call ABS(...) at h5diff_array.c This will make that (INF==INF) is true (INF is treated as an number instead of NaN) (PC -- 2009/07/28) - h5diff: add option "--use-system-epsilon" to print difference if (|a-b| > EPSILON) Change default to use strict equality (PC -- 2009/09/12) - + High-Level APIs: ------ - New public functions in Packet Table API @@ -425,12 +429,12 @@ New Features - A new API function H5DOwrite_chunk. It writes a data chunk directly into a file bypassing hyperslab selection, data conversion, and filter pipeline. The user must be careful with the function and - clearly understand the I/O process of the library. + clearly understand the I/O process of the library. (SLU - 2013/2/11) - New API: h5ltpath_valid (Fortran: h5ltpath_valid_f) which checks if a path is correct and determines if a link resolves to a valid object and checks that the link does not dangle. (MSB- 2012/3/15) - + - Added Fortran wrappers for Dimension Scale APIs. HDFFV-3797 h5dsset_scale_f h5dsattach_scale_f @@ -443,11 +447,11 @@ New Features h5dsget_num_scales_f (EIP for SB - 2011/10/13) - - Table: In version 3.0 of Table, "NROWS" (used to store number of records) was + - Table: In version 3.0 of Table, "NROWS" (used to store number of records) was deprecated (PVN - 2008/11/24) - Documentation - ------------- + Documentation + ------------- Support for new platforms, languages and compilers. ======================================= @@ -463,17 +467,17 @@ Bug Fixes since HDF5-1.8.0 release Library ------- - Incorrect usage of list in CMake COMPILE_DEFINITIONS set_property - + The CMake command, set_property with COMPILE_DEFINITIONS property needs a quoted semi-colon separated list of values. CMake will transform the list to a series of -D{value} for the compile. - + (ADB - 2014/12/09, HDFV-9041) - + - H5Z.c: H5Zfilter_avail(H5Z_filter_t id) Added else block if the call to the internal H5Z_filter_avail(id) does not fail and returns FALSE. This block calls the H5PL_load(H5PL_TYPE_FILTER, (int)id) - function to attempt to dynamically load the filter plugin. + function to attempt to dynamically load the filter plugin. (ADB - 2014/03/03 HDFFV-8629) - Added const qualifier to source buffer parameters in H5Dgather and H5D_scatter_func_t (H5Dscatter callback). (NAF - 2013/7/02) @@ -489,21 +493,21 @@ Bug Fixes since HDF5-1.8.0 release - Fixed an error that would occur when copying an object with attribute creation order tracked and indexed. (NAF - 2012/3/28 - HDFFV-7762) - Fixed a bug in H5Ocopy(): When copying an opened object, call the - object's flush class action to ensure that cached data is flushed - so that H5Ocopy will get the correct data. - (VC - 2012/3/27 - HDFFV-7853) + object's flush class action to ensure that cached data is flushed + so that H5Ocopy will get the correct data. + (VC - 2012/3/27 - HDFFV-7853) - When an application tries to write or read many small data chunks and - runs out of memory, the library had a seg fault. The fix is to + runs out of memory, the library had a seg fault. The fix is to return the error stack with proper information. (SLU - 2012/3/23. - Issue 7785) + Issue 7785) - H5Pset_data_transform had seg fault in some cases like x*-100. It works correctly now and handles other cases like 100-x or 2/x. - (SLU - 2012/3/15. Issue 7922) + (SLU - 2012/3/15. Issue 7922) - Fixed rare corruption bugs that could occur when using the new object header format. (NAF - 2012/3/15 - HDFFV-7879) - - Creating a dataset in a read-only file caused seg fault when the file + - Creating a dataset in a read-only file caused seg fault when the file is closed. It's fixed. The attemp to create a dataset will fail - with the error stack indicating the file is read-only. (SLU - + with the error stack indicating the file is read-only. (SLU - 2012/1/25. Issue 7756) - Fixed a seg fault that could occur when shrinking a dataset with chunks larger than 1 MB. (NAF - 2011/11/30 - HDFFV-7833) @@ -532,17 +536,17 @@ Bug Fixes since HDF5-1.8.0 release 3. In tools/lib/h5tools_str.c, right shifting an int value for 32 bits or more caused undefined behavior. All the problems have been corrected. (SLU - 2011/9/2) - - In v1.6 library, there was EOA for the whole MULTI file saved in the - super block. We took it out in v1.8 library because it's meaningless - for the MULTI file. v1.8 library saves the EOA for the metadata file, + - In v1.6 library, there was EOA for the whole MULTI file saved in the + super block. We took it out in v1.8 library because it's meaningless + for the MULTI file. v1.8 library saves the EOA for the metadata file, instead. But this caused some backward compatibility problem. v1.8 library couldn't open the file created with v1.6 library. We fixed the problem by checking the EOA value to detect the file - created with v1.6 library. (SLU - 2011/6/22) - - When a dataset had filters and reading data failed, the error message + created with v1.6 library. (SLU - 2011/6/22) + - When a dataset had filters and reading data failed, the error message didn't say which filter isn't registered. It's fixed now. - (SLU - 2011/6/3) - - The datatype handler created with H5Tencode/decode used to have the + (SLU - 2011/6/3) + - The datatype handler created with H5Tencode/decode used to have the reference count 0 (zero). I have fixed it. It is 1 (one) now. (SLU - 2011/2/18) - Fixed a bug that caused big endian machines to generate corrupt files @@ -550,8 +554,8 @@ Bug Fixes since HDF5-1.8.0 release fill values. Note that such datasets will no longer be readable by any machine after this patch. (NAF - 2010/02/02 - Bug 2131) - Retrieving a link's name by index in the case where the link is - external and the file that the link refers to doesn't exist will - now fail gracefully rather than cause a segmentation fault. + external and the file that the link refers to doesn't exist will + now fail gracefully rather than cause a segmentation fault. (MAM - 2010/11/17) - Modified library to always cache symbol table information. Libraries version 1.6.3 have a bug which causes them to require this @@ -571,7 +575,7 @@ Bug Fixes since HDF5-1.8.0 release certain kinds of unaligned data unreadable or corrupt them. (NAF - 2010/07/28) - valgrind reported an error of copying data to itself when a new attribute - is written (Bug #1956). I fixed it by taking out the memcpy step in + is written (Bug #1956). I fixed it by taking out the memcpy step in the attribute code. (SLU - 2010/07/28) - Fixed a bug that could cause file corruption when using non-default sizes of addresses and/or lengths. This bug could also cause @@ -594,7 +598,7 @@ Bug Fixes since HDF5-1.8.0 release by expanding and shrinking chunked datasets in certain ways. (NAF - 2010/02/16) - H5Tdetect_class said a VL string is a string type. But when it's - in a compound type, it said it's a VL type (Bug #1584). I fixed it + in a compound type, it said it's a VL type (Bug #1584). I fixed it to be consistent. It always return string type. (SLU - 2009/12/10) - Fixed a bug where writing and deleting many global heap objects (i.e. variable length data) would render the file unreadable. Previously @@ -616,7 +620,7 @@ Bug Fixes since HDF5-1.8.0 release API. (NAF - 2009/04/20 - 1533) - Fixed a problem with using data transforms with non-native types in the file. (NAF - 2009/04/20 - 1548) - - Added direct.h include file to windows section of H5private.h + - Added direct.h include file to windows section of H5private.h to fix _getcwd() warning. (ADB - 2009/04/14 - 1536) - Fixed a bug that prevented external links from working after calling H5close(). (NAF - 2009/04/10 - 1539) @@ -636,8 +640,8 @@ Bug Fixes since HDF5-1.8.0 release table messages, and correct these errors if they are found. Such files can only be successfully opened with write access. (NAF - 2009/03/23 - 1189) - - Removed the long_long #define and replaced all instances with - "long long". This caused problems with third party products. All + - Removed the long_long #define and replaced all instances with + "long long". This caused problems with third party products. All currently supported compliers support the type. (ADB - 2009/03/05) - Fixed various bugs that could prevent the fill value from being written in certain rare cases. (NAF - 2009/02/26 - 1469) @@ -658,7 +662,7 @@ Bug Fixes since HDF5-1.8.0 release - Fixed a bug where H5Tpack wouldn't remove trailing space from an otherwise packed compound type. (NAF - 2009/01/14) - Fixed up some old v2 btree assertions that get run in debug mode that - were previously failing on compilation, and removed some of the + were previously failing on compilation, and removed some of the more heavily outdated and non-rewritable ones. (MAM - 2008/12/15) - Fixed a bug that could cause problems when "automatically" unmounting multiple files. (NAF - 2008/11/17) @@ -677,7 +681,7 @@ Bug Fixes since HDF5-1.8.0 release (NAF - 2008/10/06) - Changed the return value of H5Fget_obj_count from INT to SSIZE_T. Also changed the return value of H5Fget_obj_ids from HERR_T to SSIZE_T and - the type of the parameter MAX_OBJS from INT to SIZE_T. (SLU - 2008/09/26) + the type of the parameter MAX_OBJS from INT to SIZE_T. (SLU - 2008/09/26) - Fixed an issue that could cause data to be improperly overwritten during compound type conversion. (NAF - 2008/09/19) - Fixed pointer alignment violations that could occur during vlen @@ -716,7 +720,7 @@ Bug Fixes since HDF5-1.8.0 release (QAK - 2008/03/13) - Fixed bug in H5Aget_num_attrs() routine to handle invalid location ID correctly. (QAK - 2008/03/11) - - H5Dset_extent: when shrinking dimensions, some chunks were not deleted. + - H5Dset_extent: when shrinking dimensions, some chunks were not deleted. (PVN - 2009/01/8) - Added code to maintain a min_clean_fraction in the metadata cache when in serial mode. (MAM - 2009/01/9) @@ -728,7 +732,7 @@ Bug Fixes since HDF5-1.8.0 release - CMake: When CMake commands are executed individually on the command line and the external filters are being built, the CMAKE_BUILD_TYPE define must be set to the same value as the configuration - (-DCMAKE_BUILD_TYPE:STRING=Release if using -C Release). This is needed + (-DCMAKE_BUILD_TYPE:STRING=Release if using -C Release). This is needed by the the szip and zlib filter build commands. (ADB - HDFFV-8695) - CMake: Remove use of XLATE_UTILITY program. (ADB - 2014/03/28 HDFFV-8640) - CMake: Added missing quotes in setting the CMAKE_EXE_LINKER_FLAGS for the @@ -756,26 +760,26 @@ Bug Fixes since HDF5-1.8.0 release is enabled. Shared Fortran libraries are still not supported on Mac, so configure will disable them by default, but this is overridable with the new --enable-unsupported configure option. The configure - summary has been updated to reflect the fact that the shared-ness of + summary has been updated to reflect the fact that the shared-ness of the C++/Fortran wrapper libraries may not align with the C library. (MAM - 04/11/2011 - HDFFV-4353). - Removed recognition of the parallel compilers of LAM(hcc) and ChMPIon(cmpicc) since we have no access to these two MPI implementations and cannot verify their correctness. (AKC - 2010/7/14 - Bug 1921) - Removed the following config files, as we no longer support them: - config/dec-osf*, config/hpux11.00, config/irix5.x, + config/dec-osf*, config/hpux11.00, config/irix5.x, config/powerpc-ibm-aix4.x config/rs6000-ibm-aix5.x config/unicos* MAM - 2009/10/08 - Modified configure and make process to properly preserve user's CFLAGS (and company) environment variables. Build will now properly use automake's AM_CFLAGS for any compiler flags set by the configure - process. Configure will no longer modify CFLAGS directly, nor will + process. Configure will no longer modify CFLAGS directly, nor will setting CFLAGS during make completely replace what configure has set up. MAM - 2009/10/08 - Support for TFLOPS, config/intel-osf1, is removed since the TFLOPS machine has long retired. AKC - 2009/10/06. - - Added $(EXEEXT) extension to H5detect when it's executed in the - src/Makfile to generate H5Tinit.c so it works correctly on platforms + - Added $(EXEEXT) extension to H5detect when it's executed in the + src/Makfile to generate H5Tinit.c so it works correctly on platforms that require the full extension when running executables. MAM - 2009/10/01 - BZ #1613 - Configure will now set FC and CXX to "no" when fortran and c++ @@ -790,15 +794,15 @@ Bug Fixes since HDF5-1.8.0 release the static libraries are available. MAM - 2009/08/31 - BZ #1583 - The --includedir=DIR configuration option now works as intended, and can be used to specify the location to install C header files. The default - location remains unchanged, residing at ${prefix}/include. + location remains unchanged, residing at ${prefix}/include. MAM - 2009/03/10 - BZ #1381 - Configure no longer removes the '-g' flag from CFLAGS when in production - mode if it has been explicitly set in the CFLAGS environment variable + mode if it has been explicitly set in the CFLAGS environment variable prior to configuration. MAM - 2009/03/09 - BZ #1401. - Fixed error with 'make check install' failing due to h5dump needing other tools built first. MAM - 2008/10/24. - Wpen using shared szip, it is no longer necessary to specify - the path to the shared szip libraries in LD_LIBRARY_PATH. MAM - + the path to the shared szip libraries in LD_LIBRARY_PATH. MAM - 2008/10/24. - The file libhdf5_fortran.settings is not installed since its content is included in libhdf5.settings now. AKC - 2008/10/21 @@ -806,7 +810,7 @@ Bug Fixes since HDF5-1.8.0 release (e.g., h5cc and fortran modules). Fixed. AKC - 2008/10/8. - Autotools: An export of LD_LIBRARY_PATH=<szip library location> was removed from configure and make installcheck was revised to run - scripts installed in share/hdf5_examples to use the installed h5cc, etc. + scripts installed in share/hdf5_examples to use the installed h5cc, etc. to compile and run example source files also installed there. Make installcheck will now fail when a shared szip or other external lib file cannot be found in the same manner that executables compiled and linked @@ -818,14 +822,14 @@ Bug Fixes since HDF5-1.8.0 release Performance ------------- - Removed program perform/benchpar from the enable-build-all list. The - program will be retired or moved to another location. HDFFV-8156 - (AKC 2012/10/01) + program will be retired or moved to another location. HDFFV-8156 + (AKC 2012/10/01) - Retired program perform/mpi-perf. Its purpose has been incorporated - into h5perf before. (AKC 2012/09/20) + into h5perf before. (AKC 2012/09/20) - ifdefs added to tests around include unistd.h and function to simulate - getlogin() on Windows. + getlogin() on Windows. (ADB - 2011/08/15) - - perf_serial test added to Windows projects and check batch file. + - perf_serial test added to Windows projects and check batch file. (ADB - 2009/06/11) Fortran -------- @@ -849,51 +853,51 @@ Bug Fixes since HDF5-1.8.0 release - h5dump subsetting fixed for dims greater then two When a dataset has more then two dimensions, subsetting would incorrectly calculate the data that needed to be displayed. - Added in block and stride calculation that account for dimensions greater - then two. NOTE: lines that have line breaks inserted because of display - length calculations, may have index info that is incorrect until the next + Added in block and stride calculation that account for dimensions greater + then two. NOTE: lines that have line breaks inserted because of display + length calculations, may have index info that is incorrect until the next dimension break. (ADB, 2016/03/04, HDFFV-9698) - - h5repack: h5repack would not attempt to remove UD filters. Added a - check to h5repack for UD filters that checks if the filter can + - h5repack: h5repack would not attempt to remove UD filters. Added a + check to h5repack for UD filters that checks if the filter can be dynamically loaded. This will require a change in the library to add the H5PL_load() to the H5Zfilter_avail(). (ADB - 2014/03/03 HDFFV-8629) - - h5repack: Fixed failure for converting a layout of small chunked dataset + - h5repack: Fixed failure for converting a layout of small chunked dataset (size < 1K) to contiguous layout. HDFFV-8214 (JKM 2013/03/18) - h5diff: Fixed to return correct exit code 1 when detect unique extra - attribute. Prior to this fix, h5diff returned exit code 0 indicating + attribute. Prior to this fix, h5diff returned exit code 0 indicating two files are identical. HDFFV-7643 (JKM 2013/02/15) - h5diff: Improved speed when comparing HDF5 files with lots of - attributes. Much slower performance was identified with release + attributes. Much slower performance was identified with release version from 1.8.7 to 1.8.10 compared to 1.8.6. (JKM 2012/10/19) - h5repack: "h5repack -f NONE file1.h5 out.h5" command failed if - source file contains chunked dataset and a chunk dim is bigger than + source file contains chunked dataset and a chunk dim is bigger than the dataset dim. Another issue is that the command changed max dims if chunk dim is smaller than the dataset dim. These issue occurred when dataset size is smaller than 64k (compact size limit) Fixed both. HDFFV-8012 (JKM 2012/09/24) - h5diff: Fixed not to accumulate attribute difference to dataset - difference in verbose mode (-v, -r), which caused incorrect - difference between dataset and group/datatype object if attribute + difference in verbose mode (-v, -r), which caused incorrect + difference between dataset and group/datatype object if attribute exist with any differences. This also lead to fix inconsistent format indicating difference between dataset and group/datatype object. HDFFV-5919 (JKM 2012/09/05) - - h5diff: Fixed the incorrect result when comparing attribute data + - h5diff: Fixed the incorrect result when comparing attribute data values and the data type has same class but different size. HDFFV-7942 (JKM 2012/08/15) - - ph5diff: Fixed intermittent hang issue on a certain operation in - parallel mode. It was detected by daily test for comparing - non-comparable objects, but it could have occurred in other + - ph5diff: Fixed intermittent hang issue on a certain operation in + parallel mode. It was detected by daily test for comparing + non-comparable objects, but it could have occurred in other operations depend on machine condition. HDFFV-8003 (JKM 2012/08/01) - - h5diff: Fixed test failure for "make check" due to failure of + - h5diff: Fixed test failure for "make check" due to failure of copying test files when performed in HDF5 source tree. Also applied to other tools. HDFFV-8107 (JKM 2012/08/01) - h5diff: Fixed the Function COPY_TESTFILES_TO_TESTDIR() of - testh5diff.sh to better report when there is an error in the file - copying. HDFFV-8105 (AKC -2012/07/22) - - h5diff: Fixed not to check and display dangling link status without - --follow-symlinks option. This also improved performance when + testh5diff.sh to better report when there is an error in the file + copying. HDFFV-8105 (AKC -2012/07/22) + - h5diff: Fixed not to check and display dangling link status without + --follow-symlinks option. This also improved performance when comparing lots of external links without the --follow-symlinks option. HDFFV-7998 (JKM 2012/04/26) - h5unjam: Fixed sefgault when used -V (show version) option. @@ -905,8 +909,8 @@ Bug Fixes since HDF5-1.8.0 release in error. After the fix, h5diff detects such case as non-comparable and display messages accordingly. HDFFV-7664 (JKM 2012/03/28) - h5diff: If unique objects exists only in one file and try to exclude - the unique objects with --exclude-path option, h5diff missed - excluding some objects. + the unique objects with --exclude-path option, h5diff missed + excluding some objects. Fixed to exclude objects correctly in such case. HDFFV-7837 (JKM 2012/03/20) - h5dump: Added tools library error stack to properly catch error @@ -915,60 +919,60 @@ Bug Fixes since HDF5-1.8.0 release - h5dump: Dangling links no longer throw error message, change process when open link fails. HDFFV-7839 (ADB 2012/03/12) - - h5diff: When two symbolic dangling links are compared with - --follow-symlinks option, the result should be same. It worked for + - h5diff: When two symbolic dangling links are compared with + --follow-symlinks option, the result should be same. It worked for comparing two files, but didn't work for comparing two objects. HDFFV-7835 (JKM 2012/03/09) - - h5dump: Refactored code to remove duplicated functions. Split XML + - h5dump: Refactored code to remove duplicated functions. Split XML functions from DDL functions. Corrected indentation and formatting errors. Also fixed subsetting counting overflow (HDFFV-5874). Verified all tools call tools_init() in main. HDFFV-7560 (ADB 2012/02/17) - - h5diff: fixed to prevent from displaying error stack message when + - h5diff: fixed to prevent from displaying error stack message when comparing the two dangling symlinks with follow-symlinks option. HDFFV-7836 (JKM 2012/01/13) - - h5repack: fixed memory leak for handling variable length string in + - h5repack: fixed memory leak for handling variable length string in attribute. HDFFV-7840 (JKM 2012/01/06) - h5ls: fixed segfault when access region reference data in an attribute. HDFFV-7838 (JKM 2011/12/29) - - h5diff: fixed segfault over non-comparable attribute with different + - h5diff: fixed segfault over non-comparable attribute with different dimention or rank, along with '-c' option to display details. HDFFV-7770 (JKM 2011/10/24) - - Fixed h5diff to display all the comparable object and attribute + - Fixed h5diff to display all the comparable object and attribute regardless of non-comparables. HDFFV-7693 (JKM 2011/09/16) - - Fixed h5repack to update values of references(object and region) of - attributes in h5repack for 1) references, 2) ARRAY of references, - 3) VLEN of references, and 4) COMPOUND of references. + - Fixed h5repack to update values of references(object and region) of + attributes in h5repack for 1) references, 2) ARRAY of references, + 3) VLEN of references, and 4) COMPOUND of references. (JIRA HDF5 5932) PC -2011/09/14 - h5diff: fixed segfault over dataset with container types - (array,lven) with multiple nested compound types. + (array,lven) with multiple nested compound types. (ex: compound->array->compound, compound->vlen->compound) HDFFV-7712 JKM (2011/09/01) - - h5repack: added macro to handle failure in H5Dread/write when memory + - h5repack: added macro to handle failure in H5Dread/write when memory allocation failed inside the library. (PC -- 2011/08/19) - - Fixed h5jam not to allow specifying an HDF5 formatted file as input - file for -u (user block file) option, because the original HDF5 file + - Fixed h5jam not to allow specifying an HDF5 formatted file as input + file for -u (user block file) option, because the original HDF5 file will not be accessible if allows. HDFFV-5941 (JKM 2011/08/15) - Revised command help pages of h5jam and h5unjam. The descriptions - were not up to date and some were missing. + were not up to date and some were missing. HDFFV-7515 (JKM 2011/08/15) - - h5repack: h5repack failed to copy dataset if the layout is changed - from chunked with unlimited dims to contiguous. HDFFV-7649 + - h5repack: h5repack failed to copy dataset if the layout is changed + from chunked with unlimited dims to contiguous. HDFFV-7649 (PC -- 2011/07/15) - - h5diff: "--delta" option considers two NaN of the same type are + - h5diff: "--delta" option considers two NaN of the same type are different, which is wrong based on h5diff description in Reference Manual. HDFFV-7656 (PC -- 2011/07/15) - Fixed h5diff to display instructive error message and exit with 1 when mutually exclusive options (-d, -p and --use-system-epsilon) are used together. HDFFV-7600 (JKM 2011/07/07) - - Fixed h5dump to display the first line of each element into correct + - Fixed h5dump to display the first line of each element into correct position for multiple dimention array type. - Before this fix, the first line of each element in array were + Before this fix, the first line of each element in array were displayed after the last line of previous element without - moving to the next line (+indentation). + moving to the next line (+indentation). Bug #HDFFV-5878 (JKM 2011/06/15) - Fixed h5dump to display correct value for H5T_STD_I8LE dataset - on a system (ppc64, linux, Big-Endian, clustering). + on a system (ppc64, linux, Big-Endian, clustering). Bug #HDFFV-7594 (ABERT & JKM 2011/05/12) - Fixed h5diff to compare file itself correctly. Previously h5diff reported either different or not compatible in certain cases even @@ -976,16 +980,16 @@ Bug Fixes since HDF5-1.8.0 release comparing same target objects through verifying the obj&file addresses before comparing the details in the objects (ex: datasets or attributes) Bug #HDFFV-5928 (XCAO & JKM 2011/05/06) - - Updated h5dump test case script to prevent entire test failure upon + - Updated h5dump test case script to prevent entire test failure upon source directory is read-only. Bug# HDFFV-4342 (JKM 2011/4/12) - Fixed h5dump displaying incorrect values for H5T_STD_I8BE type data in attribute on Big-Endian machine. H5T_STD_I8BE is unsigned 8bit type, - so h5dump is supposed to display -2 instead of 254. It worked - correctly on Little-Endian system , but not on Big-Endian system. + so h5dump is supposed to display -2 instead of 254. It worked + correctly on Little-Endian system , but not on Big-Endian system. Bug #HDFFV-4358 (JKM 2011/04/08) - - Updated to unify option name to '--enable-error-stack' for printing + - Updated to unify option name to '--enable-error-stack' for printing HDF5 error stack messages for HDF5 tools. h5ls and h5dump for now. - For h5ls, this replaces "-e/--errors" option, which is deprecated. + For h5ls, this replaces "-e/--errors" option, which is deprecated. Bug#2182 (JKM 2011/3/30) - Fix h5diff for --use-system-epsilon option: the calculation changed from ( |a - b| / b ) to ( |a - b| ). This was decided for better @@ -996,72 +1000,72 @@ Bug Fixes since HDF5-1.8.0 release <ref_type> ::= H5T_STD_REF_OBJECT | H5T_STD_REF_DSETREG Previously this was only displayed if the -R option was used. Bug#1725 (ADB 2011/3/28) - - Fix h5diff issues for #1: h5diff compared attributes correctly only - when two objects have the same number of attributes and attribute - names are identical, #2: didn't display useful information about + - Fix h5diff issues for #1: h5diff compared attributes correctly only + when two objects have the same number of attributes and attribute + names are identical, #2: didn't display useful information about attribute difference. Bug#2121 (JKM 2011/3/17) - - Fixed memory leak for h5diff when accessing symbolic links with + - Fixed memory leak for h5diff when accessing symbolic links with --follow-symlink option. Bug#2214 (JKM 2011/3/18) - Fixed memory leak for h5diff when access variable length string data. Bug#2216 (JKM 2011/3/18) - - Fixed and improved help page for -a option of h5ls. + - Fixed and improved help page for -a option of h5ls. Bug#1904 (JKM 2011/3/11) - - Fixed h5dump not to include attribute values in the output file when - h5dump "-y -o output_file" options were used. The problem was introduced + - Fixed h5dump not to include attribute values in the output file when + h5dump "-y -o output_file" options were used. The problem was introduced in HDF5 1.8.6 by showing data pointed by region references. (XCAO 2011/3/9) - Fixed h5copy to be able to copy any object into the same HDF5 file. Previously h5copy displayed error message when target file is same as source file. (XCAO 2011/3/8) - - Fixed h5dump for skipping some values for long array type dataset on - Windows. This issue only occurred on Windows due to the different + - Fixed h5dump for skipping some values for long array type dataset on + Windows. This issue only occurred on Windows due to the different return behavior from _vsnprintf() funtion. Bug#2161 (JKM 2011/3/3) - Fixed h5dump for skipping array indices every certain number when the array type dataset is relatively big. The certain number varies according to the size of array. Bug#2092 (JKM 2011/2/15). - Fixed h5diff for the segfault when compares compound datasets - with combination of fixed length string types and vlen string types + with combination of fixed length string types and vlen string types in certain orders. bug#2089 (JKM 2010/12/28) - - Improve h5diff performance. 1) use HDmemcmp() before comparing each + - Improve h5diff performance. 1) use HDmemcmp() before comparing each elements. 2) replace expensive H5Tequals() calls 3) retrieve datatype - information at dataset level not each element level for compound + information at dataset level not each element level for compound datasets - - Fixed h5ls to display nested compound type with curly bracket - when -S (--simple) option is used with -l (--label), so it shows - which member (in curly bracket) belong to which nested compound type + - Fixed h5ls to display nested compound type with curly bracket + when -S (--simple) option is used with -l (--label), so it shows + which member (in curly bracket) belong to which nested compound type and make the output make sense. bug#1979 (JKM 2010/11/09) - - Fixed h5diff to handle variable-length strings in a compound dataset + - Fixed h5diff to handle variable-length strings in a compound dataset correctly. (also variable-length string array in a compound dataset) - Garbage values were displayed when h5diff compared multiple - variable-length strings in a compound type dataset. + Garbage values were displayed when h5diff compared multiple + variable-length strings in a compound type dataset. Bug#1989 (JKM 2010/10/28) - Fixed h5copy to fail gracefully when copying object to non-exist group without -p option. Bug#2040 (JKM 2010/10/18) - - Fixed to compare member objects and groups recursively when two + - Fixed to compare member objects and groups recursively when two files or groups are specified to be compared. Bug#1975 (JKM 2010/9/16) - Make h5repack be able to convert a layout to COMPACT for small size dataset as default. bug#1896 (JKM 2010/09/15) - - Change h5ls not to manipulate special characters in object name or + - Change h5ls not to manipulate special characters in object name or attribute name for smart display. bug#1784 (JKM 2010/06/28) - Fixed h5ls to return exit code 1 (error) when non-existent file is specified. bug#1793. (JKM 2010/04/27) - - h5copy failed to copy dangling link when the link is specified + - h5copy failed to copy dangling link when the link is specified directly. bug#1817. (JKM 2010/04/22) - h5repack lost attributes from a dataset of reference type. bug#1726. (JKM 2010/3/25) - - h5repack sets NULL for object reference value for group or + - h5repack sets NULL for object reference value for group or named datatype. bug#1814. (JKM 2010/03/19) - h5diff: fixed incorrect behavior (hang) in parallel mode when specify invalid options (ex: -v and -q) (JKM 2010/02/17) - - h5dump/h5ls display buffer resize fixed in tools library. + - h5dump/h5ls display buffer resize fixed in tools library. (ADB - 2009/07/21 - 1520) - Fixed many problems that could occur when using h5repack with named datatypes. (NAF - 2009/4/20 - 1516/1466) - - h5dump, h5diff, h5repack were not reading (by hyperslabs) datasets - that have a datatype datum size greater than H5TOOLS_BUFSIZE, a - constant defined as 1024Kb, such as array types with large + - h5dump, h5diff, h5repack were not reading (by hyperslabs) datasets + that have a datatype datum size greater than H5TOOLS_BUFSIZE, a + constant defined as 1024Kb, such as array types with large dimensions (PVN - 2009/4/1 - 1501) - - h5import: By selecting a compression type, a big endian byte order was being + - h5import: By selecting a compression type, a big endian byte order was being selected (PVN - 2009/3/11 - 1462) - zip_perf.c had missing argument on one of the open() calls. Fixed. (AKC - 2008/12/9) @@ -1083,10 +1087,10 @@ Bug Fixes since HDF5-1.8.0 release input file. Besides that the binary file generated needs to be open with 'wb' , otherwise an end of line character is read twice. (PVN - 2008/02/19) - - Fixed bug in h5dump that caused binary output to be made only for the first + - Fixed bug in h5dump that caused binary output to be made only for the first dataset, when several datasets were requested. (PVN - 2008/04/07) - - h5dump: when doing binary output (-b), the stdout printing of attributes - was done incorrectly. Removed printing of attributes when doing binary + - h5dump: when doing binary output (-b), the stdout printing of attributes + was done incorrectly. Removed printing of attributes when doing binary output. PVN - 2008/06/05 @@ -1105,12 +1109,12 @@ Bug Fixes since HDF5-1.8.0 release - Fixed problem with H5DSget_scale_name including the NULL terminator in the size calculation returned by the function. The API does not - include the NULL terminator in the size returned (MSB- 2013/2/10) - + include the NULL terminator in the size returned (MSB- 2013/2/10) + - Fixed problem with H5TBdelete_record destroying all data following the deletion of a row. (MSB- 2012/7/26) - - Fixed H5LTget_attribute_string not closing an object identifier when an + - Fixed H5LTget_attribute_string not closing an object identifier when an error occurs. (MSB- 2012/7/21) - Fixed the H5LTdtype_to_text function. It had some memory problems when @@ -1120,48 +1124,48 @@ Bug Fixes since HDF5-1.8.0 release caused by using H5Tget_native_type function to determine the native type for reading REFERENCE_LIST attribute. The bug was exposed on Mac PPC. - (EIP - 2010/05/22 -1851) - - Fixed a bug in the H5DSdetach_scale function when 0 bytes - were allocated after the last reference to a dim. scale - was removed from the list of references in a VL element of the + (EIP - 2010/05/22 -1851) + - Fixed a bug in the H5DSdetach_scale function when 0 bytes + were allocated after the last reference to a dim. scale + was removed from the list of references in a VL element of the DIMENSION_LIST attribute; modified the function to comply - with the Spec: DIMENSION_LIST attribute is deleted now when no + with the Spec: DIMENSION_LIST attribute is deleted now when no dimension scales left attached. - (EIP - 2010/05/14 -1822) + (EIP - 2010/05/14 -1822) - Fixed a bug where the H5TB API would forget the order of fields when added out of offset order. (NAF - 2009/10/27 - 1582) - H5DSis_attached failed to account for different platform types. Added a get native type call. (ADB - 2009/9/29 - 1562) - - Dimension scales: The scale index return value in H5DSiterate_scales was not always + - Dimension scales: The scale index return value in H5DSiterate_scales was not always incremented. (PVN - 2009/4/8 - 1538) Fortran High-Level APIs: ------ - - Lite: The h5ltget_attribute_string_f used to return the C NULL character in the - returned character buffer. The returned Fortran charactor buffer now does + - Lite: The h5ltget_attribute_string_f used to return the C NULL character in the + returned character buffer. The returned Fortran charactor buffer now does not return the C NULL character. (MSB - 2012/3/23) - - Lite: The h5ltget_dataset_info_f function (gets information about a dataset) + - Lite: The h5ltget_dataset_info_f function (gets information about a dataset) was not correctly returning the dimension array. (PVN - 2009/3/23) - - Lite: the h5ltread_dataset_string_f and h5ltget_attribute_string_f functions + - Lite: the h5ltread_dataset_string_f and h5ltget_attribute_string_f functions had memory problems with the g95 fortran compiler. (PVN � 5/13/2009) 1522 - Documentation - ------------- + Documentation + ------------- F90 APIs -------- - Modified the h5open_f and h5close_f subroutines to not to call H5open and H5close correspodningly. While the H5open call just adds overhead, - the H5close call called by an Fortran application shuts down the HDF5 - library making it unaccessible to the application. + the H5close call called by an Fortran application shuts down the HDF5 + library making it unaccessible to the application. HDFFV-915 (EIP & SB - 2011/10/13) - + C++ APIs -------- @@ -1229,17 +1233,17 @@ Supported Platforms #1 SMP x86_64 GNU/Linux compilers for 64-bit applications; (koala) Version 4.1.2 20080704 (Red Hat 4.1.2-54) Version 4.8.2 - Intel(R) C, C++, Fortran Compilers for - applications running on Intel(R) 64; + Intel(R) C, C++, Fortran Compilers for + applications running on Intel(R) 64; Version 14.0.2 (Build 20140120) Linux 2.6.32-431.11.2.el6 GNU C (gcc), Fortran (gfortran), C++ (g++) #1 SMP x86_64 GNU/Linux compilers: (platypus) Version 4.4.7 20120313 Version 4.8.2 - PGI C, Fortran, C++ for 64-bit target on + PGI C, Fortran, C++ for 64-bit target on x86-64; - Version 13.7-0 + Version 13.7-0 Intel(R) C (icc), C++ (icpc), Fortran (icc) compilers: Version 14.0.2 (Build 20140120) @@ -1249,7 +1253,7 @@ Supported Platforms (ostrich) GNU Fortran (GCC) 4.4.7 20120313 (Red Hat 4.4.7-4) IBM XL C/C++ V13.1 IBM XL Fortran V15.1 - + Linux 2.6.32-220.23.1.1chaos Intel C, C++, Fortran Compilers ch5.x86_64 GNU/Linux Version 12.1.5.339 (LLNL Aztec) @@ -1266,6 +1270,7 @@ Supported Platforms Visual Studio 2010 w/ Intel Fortran 14 (cmake) Visual Studio 2012 w/ Intel Fortran 15 (cmake) Visual Studio 2013 w/ Intel Fortran 15 (cmake) + Visual Studio 2015 (cmake) Cygwin(CYGWIN_NT-6.1 1.7.34(0.285/5/3) gcc(4.9.2) compiler and gfortran) (cmake and autotools) @@ -1273,7 +1278,8 @@ Supported Platforms Visual Studio 2010 w/ Intel Fortran 14 (cmake) Visual Studio 2012 w/ Intel Fortran 15 (cmake) Visual Studio 2013 w/ Intel Fortran 15 (cmake) - + Visual Studio 2015 (cmake) + Windows 8.1 Visual Studio 2012 w/ Intel Fortran 15 (cmake) Visual Studio 2013 w/ Intel Fortran 15 (cmake) @@ -1286,23 +1292,23 @@ Supported Platforms Mac OS X Mountain Lion 10.8.1 cc Apple clang version 4.0 from Xcode 4.5.1 (owl) c++ Apple clang version 4.0 from Xcode 4.5.1 - gcc i686-apple-darwin11-llvm-gcc-4.2 (GCC) 4.2.1 from Xcode 4.5.1 - g++ i686-apple-darwin11-llvm-g++-4.2 (GCC) 4.2.1 from Xcode 4.5.1 - gfortran GNU Fortran (GCC) 4.6.2 + gcc i686-apple-darwin11-llvm-gcc-4.2 (GCC) 4.2.1 from Xcode 4.5.1 + g++ i686-apple-darwin11-llvm-g++-4.2 (GCC) 4.2.1 from Xcode 4.5.1 + gfortran GNU Fortran (GCC) 4.6.2 Tested Configuration Features Summary ===================================== In the tables below - y = tested + y = tested n = not tested in this release C = Cluster W = Workstation x = not working in this release dna = does not apply ( ) = footnote appears below second table - <blank> = testing incomplete on this feature or platform + <blank> = testing incomplete on this feature or platform Platform C F90/ F90 C++ zlib SZIP parallel F2003 parallel @@ -1330,30 +1336,30 @@ CentOS 6.4 Linux 2.6.32 x86_64 PGI n y/y n y y y Linux 2.6.32-431.11.2.el6.ppc64 n y/n n y y y -Platform Shared Shared Shared Thread- - C libs F90 libs C++ libs safe -Solaris2.11 32-bit y y y y -Solaris2.11 64-bit y y y y +Platform Shared Shared Shared Thread- + C libs F90 libs C++ libs safe +Solaris2.11 32-bit y y y y +Solaris2.11 64-bit y y y y Windows 7 y y y y Windows 7 x64 y y y y Windows 7 Cygwin n n n y Windows 7 x64 Cygwin n n n y Windows 8 y y y y Windows 8 x64 y y y y -Mac OS X Lion 10.7.3 32-bit y n y y -Mac OS X Lion 10.7.3 64-bit y n y y -Mac OS X Mountain Lion 10.8.1 64-bit y n y y +Mac OS X Lion 10.7.3 32-bit y n y y +Mac OS X Lion 10.7.3 64-bit y n y y +Mac OS X Mountain Lion 10.8.1 64-bit y n y y Mac OS X Mavericks 10.9.1 64-bit y n y y -AIX 6.1 32- and 64-bit y n n y -CentOS 5.9 Linux 2.6.18-308 i686 GNU y y y y -CentOS 5.9 Linux 2.6.18-308 i686 Intel y y y n -CentOS 5.9 Linux 2.6.18-308 i686 PGI y y y n -CentOS 5.9 Linux 2.6.18 x86_64 GNU y y y y -CentOS 5.9 Linux 2.6.18 x86_64 Intel y y y n +AIX 6.1 32- and 64-bit y n n y +CentOS 5.9 Linux 2.6.18-308 i686 GNU y y y y +CentOS 5.9 Linux 2.6.18-308 i686 Intel y y y n +CentOS 5.9 Linux 2.6.18-308 i686 PGI y y y n +CentOS 5.9 Linux 2.6.18 x86_64 GNU y y y y +CentOS 5.9 Linux 2.6.18 x86_64 Intel y y y n CentOS 6.4 Linux 2.6.32 x86_64 GNU y y y n CentOS 6.4 Linux 2.6.32 x86_64 Intel y y y n -CentOS 6.4 Linux 2.6.32 x86_64 PGI y y y n -Linux 2.6.32-431.11.2.el6.ppc64 y y y n +CentOS 6.4 Linux 2.6.32 x86_64 PGI y y y n +Linux 2.6.32-431.11.2.el6.ppc64 y y y n Compiler versions for each platform are listed in the preceding "Supported Platforms" table. @@ -1369,7 +1375,7 @@ The following platforms are not supported but have been tested for this release. Linux 2.6.18-431.11.2.el6 MPICH mpich 3.1.2 compiled with #1 SMP x86_64 GNU/Linux gcc 4.9.1 and gfortran 4.9.1 - (platypus) g95 (GCC 4.0.3 (g95 0.94!) + (platypus) g95 (GCC 4.0.3 (g95 0.94!) FreeBSD 8.2-STABLE i386 gcc 4.2.1 [FreeBSD] 20070719 (loyalty) gcc 4.6.1 20110422 @@ -1420,7 +1426,7 @@ The following platforms are not supported but have been tested for this release. gcc (Ubuntu/Linaro 4.9.1-0ubuntu1) 4.9.1 GNU Fortran (Ubuntu/Linaro 4.9.1-0ubuntu1) 4.9.1 (cmake and autotools) - + Cray Linux Environment (CLE) PrgEnv-pgi/4.0.46 hopper.nersc.gov pgcc 12.5-0 64-bit target on x86-64 Linux -tp shanghai pgf90 12.5-0 64-bit target on x86-64 Linux -tp shanghai @@ -1436,20 +1442,20 @@ Known Problems * CLANG compiler with the options -fcatch-undefined-behavior and -ftrapv catches some undefined behavior in the alignment algorithm of the macro DETECT_I - in H5detect.c (Issue 8147). Since the algorithm is trying to detect the alignment - of integers, ideally the flag -fcatch-undefined-behavior shouldn't to be used for - H5detect.c. In the future, we can separate flags for H5detect.c from the rest of + in H5detect.c (Issue 8147). Since the algorithm is trying to detect the alignment + of integers, ideally the flag -fcatch-undefined-behavior shouldn't to be used for + H5detect.c. In the future, we can separate flags for H5detect.c from the rest of the library. (SLU - 2013/10/16) * The 5.9 C++ compiler on Sun failed to compile a C++ test ttypes.cpp. It complains with this message: "/home/hdf5/src/H5Vprivate.h", line 130: Error: __func__ is not defined. - + The reason is that __func__ is a predefined identifier in C99 standard. The HDF5 C library uses it in H5private.h. The test ttypes.cpp includes - H5private.h (H5Tpkg.h<-H5Fprivate.h<-H5Vprivate.h<-H5private.h). Sun's 5.9 + H5private.h (H5Tpkg.h<-H5Fprivate.h<-H5Vprivate.h<-H5private.h). Sun's 5.9 C++ compiler doesn't support __func__, thus fails to compile the C++ test. - But 5.11 C++ compiler does. To check whether your Sun C++ compiler knows this + But 5.11 C++ compiler does. To check whether your Sun C++ compiler knows this identifier, try to compile the following simple C++ program: #include<stdio.h> @@ -1467,23 +1473,23 @@ Known Problems * The data conversion test dt_arith.c has failures (segmentation fault) from "long double" to other datatypes during hard conversion when the library - is built with the default GCC 4.2.1 on Mac Lion system. It only happens - with optimization (-O3, -O2, and -O1). Some newer versions of GCC do not + is built with the default GCC 4.2.1 on Mac Lion system. It only happens + with optimization (-O3, -O2, and -O1). Some newer versions of GCC do not have this problem. Users should disable optimization or try newer version of GCC. (Issue 8017. SLU - 2012/6/12) * The data conversion test dt_arith.c fails in "long double" to integer conversion on Ubuntu 11.10 (3.0.0.13 kernal) with GCC 4.6.1 if the library is built with optimization -O3 or -O2. The older GCC (4.5) or newer kernal - (3.2.2 on Fedora) doesn't have the problem. Users should lower down the - optimization level (-O1 or -O0) by defining CFLAGS in the command line of + (3.2.2 on Fedora) doesn't have the problem. Users should lower down the + optimization level (-O1 or -O0) by defining CFLAGS in the command line of "configure" like: CFLAGS=-O1 ./configure - It will overwrite the library's default optimization level. (Issue 7829. + It will overwrite the library's default optimization level. (Issue 7829. SLU - 2012/2/7) - + * --with-mpe configure option does not work with Mpich2. AKC - 2011/03/10) * While working on the 1.8.6 release of HDF5, a bug was discovered that can @@ -1506,7 +1512,7 @@ Known Problems cause H5Fcreate() with H5F_ACC_EXCL to fail even when the file is not existing. This is due to the MPI_File_open() call failing if the amode has the MPI_MODE_EXCL bit set. (See bug 1468 for details.) AKC - 2009/8/11 - + * Parallel tests failed with 16 processes with data inconsistency at testphdf5 / dataset_readAll. Parallel tests also failed with 32 and 64 processes with collective abort of all ranks at t_posix_compliant / allwrite_allread_blocks @@ -1515,19 +1521,19 @@ Known Problems * For SNL, spirit/liberty/thunderbird: The serial tests pass but parallel tests failed with MPI-IO file locking message. AKC - 2007/6/25. * On Intel 64 Linux cluster (RH 4, Linux 2.6.9) with Intel 10.0 compilers use - -mp -O1 compilation flags to build the libraries. Higher level of optimization - causes failures in several HDF5 library tests. + -mp -O1 compilation flags to build the libraries. Higher level of optimization + causes failures in several HDF5 library tests. * For HPUX 11.23 many tools tests failed for 64-bit version when linked to the shared libraries (tested for 1.8.0-beta2) * For SNL, Red Storm: only paralle HDF5 is supported. The serial tests pass and the parallel tests also pass with lots of non-fatal error messages. -* on SUN 5.10 C++ test fails in the "Testing Shared Datatypes with Attributes" test +* on SUN 5.10 C++ test fails in the "Testing Shared Datatypes with Attributes" test * configuring with --enable-debug=all produces compiler errors on most platforms. Users who want to run HDF5 in debug mode should use --enable-debug rather than --enable-debug=all to enable debugging information on most modules. * On Mac OS 10.4, test/dt_arith.c has some errors in conversion from long - double to (unsigned) long long and from (unsigned)long long to long double. + double to (unsigned) long long and from (unsigned)long long to long double. * On Altix SGI with Intel 9.0 testmeta.c would not compile with -O3 optimization flag. * On VAX, Scaleoffset filter isn't supported. The filter cannot be applied to @@ -1540,19 +1546,19 @@ Known Problems contribute no IO and the application asks to do IO with collective, we found that when using 4 processors, a simple collective write will be hung sometimes. This can be verified with t_mpi test under testpar. -* The dataset created or rewritten with the v1.6.3 library or after can't - be read with the v1.6.2 library or before when Fletcher32 EDC(filter) is - enabled. There was a bug in the calculating code of the Fletcher32 - checksum in the library before v1.6.3. The checksum value wasn't consistent - between big-endian and little-endian systems. This bug was fixed in - Release 1.6.3. However, after fixing the bug, the checksum value is no - longer the same as before on little-endian system. The library release +* The dataset created or rewritten with the v1.6.3 library or after can't + be read with the v1.6.2 library or before when Fletcher32 EDC(filter) is + enabled. There was a bug in the calculating code of the Fletcher32 + checksum in the library before v1.6.3. The checksum value wasn't consistent + between big-endian and little-endian systems. This bug was fixed in + Release 1.6.3. However, after fixing the bug, the checksum value is no + longer the same as before on little-endian system. The library release after 1.6.4 can still read the dataset created or rewritten with the library of v1.6.2 or before. SLU - 2005/6/30 * For the version 6(6.02 and 6.04) of Portland Group compiler on AMD Opteron processor, there's a bug in the compiler for optimization(-O2). The library - failed in several tests but all related to multi driver. The problem has - been reported to the vendor. + failed in several tests but all related to multi driver. The problem has + been reported to the vendor. * On IBM AIX systems, parallel HDF5 mode will fail some tests with error messages like "INFO: 0031-XXX ...". This is from the command poe. Set the environment variable MP_INFOLEVEL to 0 to minimize the messages @@ -1566,7 +1572,7 @@ Known Problems to provide a mean to run poe without the debug socket. * The C++ library's tests fails when compiling with PGI C++ compiler. The - workaround until the problem is correctly handled is to use the + workaround until the problem is correctly handled is to use the flag "--instantiate=local" prior to the configure and build steps, as: setenv CXX "pgCC --instantiate=local" for pgCC 5.02 and higher @@ -1580,9 +1586,9 @@ Known Problems * The --enable-static-exec configure flag will only statically link libraries if the static version of that library is present. If only the shared version of a library exists (i.e., most system libraries on Solaris, AIX, and Mac, - for example, only have shared versions), the flag should still result in a - successful compilation, but note that the installed executables will not be - fully static. Thus, the only guarantee on these systems is that the + for example, only have shared versions), the flag should still result in a + successful compilation, but note that the installed executables will not be + fully static. Thus, the only guarantee on these systems is that the executable is statically linked with just the HDF5 library. * With the gcc 2.95.2 compiler, HDF 5 uses the `-ansi' flag during @@ -1590,7 +1596,7 @@ Known Problems able to handle the `long long' datatype with the warning: warning: ANSI C does not support `long long' - + This warning is innocuous and can be safely ignored. * Certain platforms give false negatives when testing h5ls: @@ -1608,35 +1614,35 @@ Known Problems * On some platforms that use Intel and Absoft compilers to build HDF5 fortran library, compilation may fail for fortranlib_test.f90, fflush1.f90 and fflush2.f90 - complaining about exit subroutine. Comment out the line + complaining about exit subroutine. Comment out the line IF (total_error .ne. 0) CALL exit (total_error) * Information about building with PGI and Intel compilers is available in INSTALL file sections 5.7 and 5.8 * On at least one system, (SDSC DataStar), the scheduler (in this case - LoadLeveler) sends job status updates to standard error when you run + LoadLeveler) sends job status updates to standard error when you run any executable that was compiled with the parallel compilers. - This causes problems when running "make check" on parallel builds, as + This causes problems when running "make check" on parallel builds, as many of the tool tests function by saving the output from test runs, - and comparing it to an exemplar. + and comparing it to an exemplar. The best solution is to reconfigure the target system so it no longer inserts the extra text. However, this may not be practical. - In such cases, one solution is to "setenv HDF5_Make_Ignore yes" prior to - the configure and build. This will cause "make check" to continue after + In such cases, one solution is to "setenv HDF5_Make_Ignore yes" prior to + the configure and build. This will cause "make check" to continue after detecting errors in the tool tests. However, in the case of SDSC DataStar, it also leaves you with some 150 "failed" tests to examine by hand. A second solution is to write a script to run serial tests and filter out the text added by the scheduler. A sample script used on SDSC - DataStar is given below, but you will probably have to customize it - for your installation. + DataStar is given below, but you will probably have to customize it + for your installation. - Observe that the basic idea is to insert the script as the first item - on the command line which executes the the test. The script then + Observe that the basic idea is to insert the script as the first item + on the command line which executes the the test. The script then executes the test and filters out the offending text before passing it on. @@ -1658,11 +1664,11 @@ Known Problems exit $RETURN_VALUE You get the HDF make files and test scipts to execute your filter script - by setting the environment variable "RUNSERIAL" to the full path of the - script prior to running configure for parallel builds. Remember to + by setting the environment variable "RUNSERIAL" to the full path of the + script prior to running configure for parallel builds. Remember to "unsetenv RUNSERIAL" before running configure for a serial build. - Note that the RUNSERIAL environment variable exists so that we can + Note that the RUNSERIAL environment variable exists so that we can can prefix serial runs as necessary on the target system. On DataStar, no prefix is necessary. However on an MPICH system, the prefix might have to be set to something like "/usr/local/mpi/bin/mpirun -np 1" to |