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* [svn-r5259] Purpose:Quincey Koziol2002-04-2518-1153/+836
| | | | | | | | | | | | | | | | Code cleanup Description: Previously, the I/O pipeline (pline), external file list (efl) and fill- value (fill) structs were passed down the raw data function call chain, even into and/or through functions which didn't use them. Since all three of these pieces of information are available from the dataset creation property list, just pass the dataset creation property list down the function call chain and query for the information needed in a particular function. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5257] Purpose:Albert Cheng2002-04-251-1/+1
| | | | | | | | | | | | | | | | | | | Bug fix Description: $(LT_RUN) was used to execute ./H5detect in src/Makefile.in. $RUNTEST was set to $(LT_RUN) which was used to execute sequential executable. $(LT_RUN) is "../libtool --mode=execute". But libtool invokes some commands that are not supported in the Tflops machine. That caused failures during the build and check processes. Solution: Upon investigation, there does not seem to be need to use $(LT_RUN) any more. The "libtool --mode=link" now generates a "fake" executable that is actually a command-script file that can regenerate the real executable with dynamic libraries hooks setup properly. Undo all those $LT_RUN substitute and let $RUNSERIAL execute those sequential executables. Platforms tested: Eirene(serial), modi4(parallel)
* [svn-r5255] Purpose:Quincey Koziol2002-04-251-180/+41
| | | | | | | | | | | Code cleanup Description: Reduce gratuitous differences between H5D_write and H5D_read and also remove distracting debugging printf's that were ifdef'd out. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5254] Purpose:Quincey Koziol2002-04-251-3/+13
| | | | | | | | | | | Code tweak. Description: Allow the 'fill' parameter of H5S_select_fill to be NULL and allocate a temporary buffer for it, if so. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5244] MuQun Yang2002-04-241-1/+5
| | | | | | | | | | | | | | | Purpose: update macro HDstat Description: The original defination of HDstat only defines HDstat as stat. the file size defined at struct stat is int32, However for files greater than 4G(or 2G)file, lookup of file size will fail on windows when using stat. Add a macro for windows,define HDstat as istat64. This fix is the same as HDfstat macro. Solution: Platforms tested: linux 2.2.18
* [svn-r5230] Purpose:Quincey Koziol2002-04-237-251/+173
| | | | | | | | | | | | | | | | | Code cleanup Description: Clean up the H5B_iterate code to not have a single hard-wired iterator for each interface which uses a B-tree, instead accept a function pointer which determines the callback function. This allows additional iterator callbacks to be defined without requiring additional H5B functions to be created. In that spirit, remove the H5B_prune_by_extent call and convert the H5F_istore callback routine for it into a callback routine for H5B_iterate. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5219] Purpose:Quincey Koziol2002-04-2213-17/+18
| | | | | | | | | | Code cleanup Description: Clean up warnings from gcc 3.1 Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5213] Snapshot version 1.5 release 26HDF Admin2002-04-201-2/+2
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* [svn-r5205] Purpose:Albert Cheng2002-04-195-14/+10
| | | | | | | | | | | | | | Code cleanup Description: Platform dependent code related to the struct stat and fstat calls polluted source codes. Hard to maintain. Solution: Platform dependent code are moved to H5private.h and then internal code can #include H5private.h. Repeat those macro definition for the stdio and multi drivers since they area examples for writing a virtual file driver. They must not use any internal code. Platforms tested: eirene (parallel), modi4 (serial including gass driver.)
* [svn-r5203] Purpose:Quincey Koziol2002-04-185-1063/+1031
| | | | | | | | | | Code cleanup Description: Re-indented new code to match coding style of rest of library. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5202] Purpose:Quincey Koziol2002-04-181-39/+35
| | | | | | | | | | | Code cleanup Description: Update 'indent' flags for library to include some flags in later versions of GNU indent. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5200] Purpose:Quincey Koziol2002-04-185-44/+39
| | | | | | | | | | Code Cleanup Description: Clean up compiler warnings from the last bunch of checkins Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5199] Snapshot version 1.5 release 25HDF Admin2002-04-181-2/+2
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* [svn-r5198] Purpose:Quincey Koziol2002-04-181-23/+18
| | | | | | | | | | | Code Cleanup Description: Remove "knowledge" about external file storage from H5D_init_storage and call H5F_seq_write instead, which handles things correctly. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5196] Purpose:Quincey Koziol2002-04-171-1/+1
| | | | | | | | | | Code cleanup Description: Fix incorrect include from <H5Sprivate.h> to "H5Sprivate.h" Platforms tested: Just eyeballed it.
* [svn-r5195] Purpose:Quincey Koziol2002-04-175-64/+15
| | | | | | | | | | | | | | Code cleanup Description: Got rid of the "H5T_BKG_TEMP" setting that was used internally to the library, since temporary background buffers are now handled by the individual conversion routines instead of in a global background buffer. No APIs were changed or affected by this. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5192] Purpose:Quincey Koziol2002-04-172-7/+7
| | | | | | | | | | Code cleanup Description: Move the H5T_bkg_t structure from H5Fpublic.h to H5Tpublic.h Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5191] Purpose:Quincey Koziol2002-04-172-32/+64
| | | | | | | | | | | | | | | | | | | Bug fix Description: When several level deep nested compound & VL datatypes are used, the data in the nested compound datatypes is incorrectly sharing the same "background buffer", causing data corruption when the data is written to the file. Solution: Allocate a separate background buffer for each level of the nested types to convert. (Also allocate temporary background buffers for array datatypes, where this sort of problem could occur also) Added more regression tests to check for these errors. Platforms tested: FreeBSD 4.5 (sleipnir) & Solaris 2.6 (baldric)
* [svn-r5170] Raymond Lu2002-04-1116-340/+1369
| | | | | | | | | | | Purpose: New feature Description: Fill-value's behaviors for contiguous dataset have been redefined. Basicly, dataset won't allocate space until it's necessary. Full details are available at http://hdf.ncsa.uiuc.edu/RFC/Fill_Value, at this moment. Platforms tested: Linux 2.2.
* [svn-r5168] Pedro Vicente Nunes2002-04-1112-245/+1482
| | | | | | | | | | | | | | | | | | | | | | Purpose: H5Dset_extent API function Description: 1 new public function: H5Dset_extent, that allows shrinking a dataset several private functions that free the previously allocated chunks H5F_istore_prune_by_extent, H5B_prune_by_extent : removes the chunks H5F_istore_initialize_by_extent : initializes them with the fill value H5S_select_fill is used to fill the selection in the memory buffer Platforms tested: Windows 2000 SUN( arabica) LINUX (eirene) IRIX64 (modi4)
* [svn-r5165] Purpose:Albert Cheng2002-04-102-5/+29
| | | | | | | | | | | Feature Description: Added comments that this is intended as an example of file driver. Added a macro detection at the end to flag if non-public definitions are used. (only check for H5private.h which is mostly likely used. Not bullet proof at all.) Platforms tested: eirene.
* [svn-r5164] Just couple white space editing in HMPI_ERROR macros.Albert Cheng2002-04-101-2/+2
| | | | Nothing of consequence.
* [svn-r5153] Pedro Vicente Nunes2002-04-091-0/+1
| | | | | | Purpose: Modified all.zip file to include a windows project for set_extend
* [svn-r5152] Purpose:Quincey Koziol2002-04-0910-46/+730
| | | | | | | | | | | | | | | New Feature Description: Added new H5Dfill() routine to fill the elements in a selection for a memory buffer with a fill value. This is a user API wrapper around some internal routines which were needed for the fill-value modifications from Raymond as well as Pedro's code for reducing the size of a chunked dataset. Platforms tested: FreeBSD 4.5 (sleipnir) [and IRIX64 6.5 (modi4) in parallel, in a few minutes]
* [svn-r5148] Snapshot version 1.5 release 24HDF Admin2002-04-061-2/+2
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* [svn-r5147] Raymond Lu2002-04-052-0/+60
| | | | | | | | | | Purpose: New feature Description: Added a query function H5Tget_member_index for compound and enumeration data types, to retrieve member's index by its name. Platforms tested: Linux 2.2
* [svn-r5142] ./hdf5-devel/src/H5Fistore.cRobb Matzke2002-04-052-6/+6
| | | | | | | | | Minor h5ls bugfix for compound types with array members. (Similar changes shortly for 1.4 branch). 2002-04-02 10:22:55 Robb Matzke <matzke@arborea.spizella.com> * H5F_istore_read: Realigned a couple of comments.
* [svn-r5139] Purpose:Quincey Koziol2002-04-032-6/+2
| | | | | | | | Code cleanup Description: Clean up a few warnings on the SGI. Platforms tested: IRIX64 6.5 (modi4)
* [svn-r5138] Purpose:Quincey Koziol2002-04-039-150/+515
| | | | | | | | | | | | | | | | | | | | | | Bug Fix & Code Cleanup Description: The MPI-IO optimized transfer routines (H5S_mpio_spaces_read/H5S_mpio_space_write) are not being invoked in all the cases where they could be used. Additionally, the code for determining if an optimized transfer is wrapped into the actual I/O transfer routine in a very confusing way. Solution: Re-enabled MPI-IO optimized transfer routines in all the cases where they should work. Extracted all the pre-conditions for optimized transfers into separate routines from the transfer routines. Platforms tested: FreeBSD 4.5 (sleipnir) & IRIX64 6.5 (modi4)
* [svn-r5135] Purpose:Albert Cheng2002-04-034-11/+48
| | | | | | | | | | | | | | | | | | | | | | Features. Description: Error stack used to report only hdf5 predefined error messages because it takes only static strings. Runtime defined messages were not pushed to the stack. Added the means and macros to push MPI error strings onto the hdf5 error stack. Added a new minor error class as H5E_MPIERR for this class of messages. H5Epulbic.h, H5E.c: Added H5E_MPIERR and its minor class description. H5Eprivate.h: Added HMPI_XXX macros to push MPI error strings to the stack. H5FDmpio.c: Changed couple places to use the new macros to test the new macros. A more through changes to make use of these new macros will be done later. Platforms tested: eirene (serial, parallel) modi4(parallel)
* [svn-r5134] Purpose:Quincey Koziol2002-04-031-6/+6
| | | | | | | | Fix typo... Description: Fix typo in last H5S_find() checkin... Platforms tested: IRIX64 6.5 (modi4)
* [svn-r5132] Purpose:Bill Wendling2002-04-021-279/+324
| | | | | | | | | | | | | | | | | | | Autotools Update Description: I've updated autoconf, automake, and libtool to the latest/greatest versions; 2.53, 1.6, and 1.4.2 resp. Many changes come with the new versions: - ltconfig is no longer used - acconfig.h is no longer used (#define values are declared with the macro) - regeneration of all of the aclocal.m4, configure, and H5config.h.in files. - new config.{guess,sub} files - new ltmain.sh file Platforms tested: AIX (blue), and Linux
* [svn-r5131] Purpose:Quincey Koziol2002-04-023-48/+57
| | | | | | | | | | | | | | Code cleanup Description: The function pointer for doing parallel I/O was being set in the H5D_read and H5D_write routines instead of in H5S_conv, where it belongs. Solution: Added an extra 'flags' parameter to H5S_find to allow the function to determine when to set the MPIO functions instead of the regular optimized I/O routines and get rid of code messing with the function pointer in the H5D routines. Platforms tested: IRIX64 6.5 (modi4)
* [svn-r5130] Purpose:Quincey Koziol2002-04-0213-490/+448
| | | | | | | | | | | | | | | | | | | | | | Bug Fix & Feature Description: The selection offset was being ignored for optimized hyperslab selection I/O operations. Additionally, I've found that the restrictions on optimized selection I/O operations were too strict and found a way to allow more hyperslabs to use the optimized I/O routines. Solution: Incorporate the selection offset into the selection location when performing optimized I/O operations. Allow optimized I/O on any single hyperslab selection and also allow hyperslab operations on chunked datasets. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5126] Purpose:Quincey Koziol2002-04-012-43/+105
| | | | | | | | | | | Bug Fix (sorta) Description: "small" contiguous hyperslabs were not being detected correctly by H5S_hyper_select_contigous() leading to poorer performance than possible. Solution: Corrected check for small hyperslabs. Also cleaned up the H5S_find() code. Platforms tested: FreeBSD 4.5 (sleipnir)
* [svn-r5123] Raymond Lu2002-03-293-15/+76
| | | | | | | | | | | Purpose: Bug fix(#697) Description: Variable-length string wasn't treated as string. Solution: Added character set and padding into VL string type. Platforms tested: FreeBSD
* [svn-r5110] ./hdf5-devel/src/H5G.cRobb Matzke2002-03-281-16/+36
| | | | | Merge of name component length limit bugfix from 1.4 branch. A couple of very minor typos fixed.
* [svn-r5109] ./hdf5-devel/src/H5Fistore.cRobb Matzke2002-03-282-2/+2
| | | | | Merge of name component length limit bugfix from 1.4 branch. A couple of very minor typos fixed.
* [svn-r5108] ./hdf5-devel/src/H5B.cRobb Matzke2002-03-281-1/+1
| | | | | | | | Merge of name component length limit bugfix from 1.4 branch. A couple of very minor typos fixed. 2002-03-18 14:30:58 Robb Matzke <matzke@arborea.spizella.com> * H5B_assert: Fixed typos in comments.
* [svn-r5101] MuQun Yang2002-03-275-9/+18
| | | | | | | | | | | | | | | Purpose: fix a windows bug Description: 1. To create a >4GB file, fstati64 has to be used instead of fstat. change fstat to fstati64 for WIN32 macroes. Some discussions are going on the general issue on how to better handle with WIN32 or other similar platform. This check-in is just a reminder not to forget the windows bug. 2. erase a WIN32 macro(include winsock2.h) at h5detect.c. It is not a problem now. Solution: use fstati64 instead of fstat for win32. Platforms tested: windows2000(confirmed at linux machine eirene)
* [svn-r5096] Purpose:Quincey Koziol2002-03-276-5/+106
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | Bug Fix Description: The H5Gget_objinfo() function was not setting the 'fileno' field in the H5G_stat_t struct passed in. Solution: Added a "file serial number" to each file currently open in the library and put that in the 'fileno' field. If a file is opened twice (with H5Fopen) and the VFL driver detects that it is the same file (i.e. the two file structures have the same "shared file info" in the library's memory structures), they will have the same serial number. This serial number has two drawbacks: - If a VFL driver doesn't/can't detect that two calls to H5Fopen with the same file actually _are_ the same file, each will get a different serial number - If the same file is closed and re-opened, the serial number will be different. It is be possible to fix the second drawback for many VFL drivers, but it would be a lot of effort and probably isn't worth it until we've got a good reason to do it. Dunno if we'll ever be able to fix the first drawback... Platforms tested: FreeBSD 4.5 (sleipnir) VS: ----------------------------------------------------------------------
* [svn-r5082] Purpose:Quincey Koziol2002-03-261-2/+8
| | | | | | | | | | | | | | | | | | | | Bug Fix Description: When reading a contiguous hyperslab that spanned the entire dataset and was larger that the type conversion buffer, the hyperslab routines need to fill the type conversion buffer and then return to the I/O routines. When the I/O routines resume the hyperslab operation, it was possible to have a combination of coordinates which caused the hyperslab iterator to incorrectly advance in the file, causing some data to be re-read or re-written. Solution: Corrected the H5S_hyper_iter_next routine to correctly handle contiguous hyperslabs that span the entire dataset dimensions. Platforms tested: Linux (eirene)
* [svn-r5078] Snapshot version 1.5 release 23HDF Admin2002-03-231-2/+2
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* [svn-r5075] Snapshot version 1.5 release 22MuQun Yang2002-03-211-2/+2
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* [svn-r5074] Purpose:Bill Wendling2002-03-201-15/+4
| | | | | | | | | Code Motion Description: Removal of HDF4 from the configure/Makefiles. This is a precursor to the actual physical removal of the HDF4 tools from the HDF5 tree. Platforms tested: Arabica, Dangermouse
* [svn-r5064] Pedro Vicente Nunes2002-03-141-18/+7
| | | | | | | | | Purpose: updated the H5D_update_chunk function Description: removed some debugging code headers Platforms tested: w2000, linux
* [svn-r5063] Pedro Vicente Nunes2002-03-131-6/+53
| | | | | | | | | Purpose: added a new function H5D_update_chunck that will update the chunk information; for the moment this function just has debugging of the b-tree Platforms tested: w2000 , eirene
* [svn-r5062] Pedro Vicente Nunes2002-03-132-187/+206
| | | | | | | | | | Purpose: code clean up Description: just some clean up of the functions H5D_set_extend and H5S_set_extend before the big change (changing chunk info in the b-tree struct of the dataset) Platforms tested: w2000, eirene
* [svn-r5060] Thomas Radke2002-03-111-3/+3
| | | | | | | | | | | | | Purpose: Bugfix Description: Internally created socket wasn't closed Solution: In my last commit I only fixed the case for sending data over a socket. There was also a resource leak for the receiving side where an internally created socket wasn't closed. Same wrong logical condition, same fix. Platforms tested: Linux, SGI
* [svn-r5059] Thomas Radke2002-03-111-1/+1
| | | | | | | | | | | | | | Purpose: Bugfix Description: If the socket, used for data streaming by the Stream driver, was created by the driver itself, it did not close it after the file had been closed. A resource leak occured. Solution: This bug was just introduced due to a logical condition. Fixing the condition solved the problem. Platforms tested: Linux, SGI
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