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* [svn-r15941] Purpose: Close bug 1305.Neil Fortner2008-10-243-5/+349
| | | | | | | | | Description: Added a new function, H5O_alloc_shrink_chunk, which removes all null messages from a chunk and shrinks the chunk appropriately. Modified H5O_merge_null to call this function when a null message is created with a size >= 64k. Tests added for this functionality. Tested: kagiso (h5committest on 1.8 version)
* [svn-r15937] Description:Quincey Koziol2008-10-231-45/+46
| | | | | | | | | | | | | | | | | | | | | | Correct error in metadata accumulator code which wasn't expanding the metadata accumulator when adjoining (but not overlapping) I/O writes occurred. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15920] Updated with the information of the removal of ↵Albert Cheng2008-10-211-0/+2
| | | | libhdf5_fortran.settings.
* [svn-r15913] Bug fix: #933Albert Cheng2008-10-216-72/+18
| | | | | | | The information of libhdf5_fortran.settings are all included in libhdf5.settings now. Remove it from the source. Tested: kagiso with fortran and C++.
* [svn-r15905] Purpose: Remove old source files from WindowsScott Wegner2008-10-202-26/+24
| | | | | | | | Description: The source file H5fortran_flags.f90 was recently removed as their symbols were consolidated into the H5E module. We were still referencing the files in Windows, and causing errors. This checkin completely removes references of H5fortran_flags.f90 from Windows. Tested: Vs2005 on WinXP
* [svn-r15904] Purpose: Add new h5dump test to WindowsScott Wegner2008-10-201-0/+4
| | | | | | | | Description: Two new test cases for h5dump were recently added to the test script on Unix. This checkin also adds the new cases to Windows. Tested: VS2005 on WinXP
* [svn-r15903] Purpose: Fix Windows compiler errorScott Wegner2008-10-201-4/+5
| | | | | | | | Description: Visual Studio compiler was complaining because variables were declared mid-function, when they should be declared at the top. This checkin simply moves the declarations to the top. Tested: Simple edit, VS2005 only
* [svn-r15886] Purpose: Close bug 1332Neil Fortner2008-10-1624-107/+541
| | | | | | | | | Description: Improved external link traversal of h5dump. h5dump will now properly avoid all cycles, even those spanning multiple files. Improvement to the output of committed datatypes. Committed datatypes are now checked for uniqueness (like other objects). Tests added for these cases. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15880] Description:Scot Breitenfeld2008-10-151-1/+0
| | | | Moved the H5E fortran flags contained in H5fortran_flags.f90 to the H5E fortran Module (H5Eff.f90), so H5fortran_flags.f90 is no longer needed.
* [svn-r15879] Description:Scot Breitenfeld2008-10-154-167/+145
| | | | Moved the H5E flags from H5fortran_flags.f90 into the H5E module, we therefore don't need H5fortran_flags.f90.
* [svn-r15868] Description:Quincey Koziol2008-10-1521-2299/+2214
| | | | | | | | | | | | | | | | | | | | | | | | | | | Correct a minor error in file free space allocation which was affecting the 'multi' VFD and preventing some tests from fully working with it. Wholesale revisitation of all the places where tests were disabled with various VFDs and remove or correct all these so that _only_ the tests which _really_ can't work with particular VFDs are skipped during a 'make check-vfd' test. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15864] Description:Scot Breitenfeld2008-10-141-11/+46
| | | | | | | | We check for all the available reals in Fortran and if 16 byte real is available in Fortran and not in C then we disable the 16 byte real in Fortran. Also added the test for 12 byte real in Fortran so that it can match the 12 byte float in C if available. Note: if KIND=10 and KIND=16 are both avaiable as when using g95, then it may be the case on some systems that the size of KIND=10 and KIND=16 are both 16 bytes, so the program will print twice in H5fort_type_defines.h #define H5_FORTRAN_HAS_REAL_16 which should not cause any errors.
* [svn-r15861] Description:Quincey Koziol2008-10-1422-390/+493
| | | | | | | | | | | | | | | | | | | | | | | | Various bug fixes & cleanups with VFDs and file free space changes, along with cleaning up compiler warnings. Enable more VFDs (for 'make check-vfd' testing) for many tests. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15855] Purpose: Bring recent Windows-specific fixes from 1.8 branch to ↵Scott Wegner2008-10-133-7/+9
| | | | | | | | | | | | | | | | | | | | | | | | | | | | trunk Description: This checkin includes revisions 15845, 15846, and 15853 from the 1.8 branch. From the svn log: r15845: Purpose: Add Windows-specific version of HDftruncate Description: Windows doesn't include a version of the system call ftruncate. There is a similar call, _chsize_s, which performs very similarly. Thus, we map HDftruncate to _chsize_s in our Windows header file, H5win32defs.h. r15846: Purpose: Declare loop variable at beginning of function Description: On Windows, we were getting compile errors because h5test.c includes a function with variable declarations in the middle of the call. The Microsoft C compiler demands that all variables be declared at the top of the function. This checkin simply moves the declaration to the top to satisfy Visual Studio. r15853: Purpose: Decrease size of points array in links test Description: In the external_set_elink_fapl2 links test, there is a large array of points which declared on the stack for testing. Previously, the array was 1000 x 1000, which was too large for Visual Studio to handle. As a result, we were getting stack overflows during the test. We've reduced the number to 400, as this seems to be below the limit. The exact number of points in the array isn't important to the test. Tested: VS2005 on WinXP
* [svn-r15852] Added a new test case. When a datatype is a SOHM type in one ↵Raymond Lu2008-10-131-2/+181
| | | | | | | | file, test that the second file using the same datatype actually save it in the file, too. Tested with h5committest.
* [svn-r15851] Description:Scot Breitenfeld2008-10-131-751/+799
| | | | Added additional H5T definitions: H5T_NATIVE_REAL_4, H5T_NATIVE_REAL_8, H5T_NATIVE_REAL_16
* [svn-r15850] Description:Scot Breitenfeld2008-10-131-0/+88
| | | | Removed refences to "double" so that we don't distinguish between writeDoubleToFiles and writeFloatToFiles such that we match the definitions of c_float_4, c_float_8, and c_float_16 in H5f90i_gen.h
* [svn-r15849] Description:Scot Breitenfeld2008-10-133-76/+374
| | | | | | Changed the datatype test programs such that we don't distinguish between writeDoubleToFiles and writeFloatToFiles so that we only define c_float_4, c_float_8, and c_float_16 in H5f90i_gen.h Added the definition of real_4_f, real_8_f, real_16_f depending on if they are available, also in H5f90i_gen.h
* [svn-r15848] Description:Scot Breitenfeld2008-10-132-14/+39
| | | | Cosmetic changes: added additional comments at the start of the file.
* [svn-r15843] 1. Remove "ifdef OUT" from test/links.cVailin Choi2008-10-132-2/+5
| | | | 2. Add description to release doc for the two new public routines and h5stat bug fix.
* [svn-r15832] Modified the display of the accumulated times taken to open and ↵Christian Chilan2008-10-091-1/+1
| | | | | | close files. Tested on kagiso.
* [svn-r15828] Description:Quincey Koziol2008-10-094-1156/+1321
| | | | | | | | | | | | | | | | | | | | | | | | | | | Skip some free space manager tests when using a VFD that doesn't support the feature being tested. Use a particular memory type with the file free space sections. Uncomment the metadata aggregator feature for the fmily VFD, as it appears to be working after the file free space changes. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15825] Description:Quincey Koziol2008-10-0922-650/+806
| | | | | | | | | | | | | | | | | | | | | | | | Fix various problems with a the core & sec2 VFDs. Improve the h5_get_file_size() routine to handle files created with VFDs that use multiple files. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15824] Updated a bug fix information.Albert Cheng2008-10-081-0/+2
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* [svn-r15822] Bug fix: #1090Albert Cheng2008-10-086-16/+16
| | | | | | | | | | | The custom rules for installing h5cc, h5fc, and the fortran modules in fortran and in hl/fortran don't use $(DESTDIR). Added it to all those rules. Tested: kagiso both serial and parallel with fortran and cxx enabled. Tested by: make install make DESTDIR=/tmp/acheng install diff -r /tmp/acheng/.../hdf5 hdf5
* [svn-r15819] Modifications for bug #1253:Vailin Choi2008-10-081-7/+22
| | | | | | | | | 1. Fixed segmentation fault in print_group_info() 2. Call print_statistics() in main() when objects/links are successfully traversed; otherwise, return warning message. line, and those below, will be ignored-- M h5stat/h5stat.c
* [svn-r15818] Fixed error in metadata cache configuration validation code ↵John Mainzer2008-10-081-0/+1
| | | | | | | | | | | uncovered when updating documentation for "cork the cache" and flash cache size increment code. Tested: Serial on Phoenix Parallel on Kagiso Serial on Linew
* [svn-r15816] Purpose: Update h5ls test scriptScott Wegner2008-10-082-0/+9
| | | | | | | | | | Description: The general h5ls test script was recently updated. This checkin brings those changes to Windows Also add freespace & mf to general test script, since I forgot in the last checkin Tested: VS2005 on WinXP
* [svn-r15815] Purpose: Add new source code and tests to WindowsScott Wegner2008-10-089-395/+2063
| | | | | | | | | | Description: Many new source files were added from the freespace branch. This checkin adds the code to Windows as well. Note: Some tests are still failing on Windows, but this checkin brings us closer to fixing them. In particular, freespace test fails on compile (Quincey is working on it), and the DLL links test fails at runtime (I'll look into it) Tested: VS2005 on WinXP
* [svn-r15810] Some test produced files were not cleaned by "make clean".Albert Cheng2008-10-082-6/+6
| | | | | | Added them to the clean list. Tested: kagiso.
* [svn-r15808] Some test produced files were not cleaned by "make clean".Albert Cheng2008-10-084-4/+5
| | | | | | Added them to the clean list. Tested: kagiso, serial and parallel.
* [svn-r15807] correction in test name, testing "non" initialized chunksPedro Vicente Nunes2008-10-071-2/+2
| | | | tested: windows, linux
* [svn-r15804] Purpose: Add option to h5ls to enable external link traversal.Neil Fortner2008-10-0716-11/+68
| | | | | | | | Description: Added -E option to h5ls. When set, this alows h5ls to enter external files (currently only through an external link). The -r option by itself will no longer allow h5ls to traverse external links. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15802] Description:Quincey Koziol2008-10-071-994/+1090
| | | | | | | | | Skip some file free space tests that deal with aligned allocations when using the stdio VFD, which has its own allocation process that drops the unaligned fragments instead of tracking them with the free space manager. Tested on: Mac OS X/32 10.5.5 (amazon) w/stdio VFD
* [svn-r15800] Description:Quincey Koziol2008-10-07126-6401/+18008
| | | | | | | | | | | | | | | | | | | | | | | Bring file free space branch changes through r15795 into trunk, which includes a fair bit of code cleanup & rearrangement along with a couple of bug fixes also. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15798] Description:Quincey Koziol2008-10-071-1/+1
| | | | | | | | Change H5Tcommit() call to H5Tcommit2() call, so that library builds with the default API set to v16 work. Tested on: Linux/64 2.4 (smirom) w/default API set to v16
* [svn-r15796] Purpose: Close bug #1322Neil Fortner2008-10-0713-76/+246
| | | | | | | | | Description: Fixes a possible datatype id leak that could occur during compound datatype conversion, or more precisely, when unregistering those conversions. Datatype ids normally registered by the library are no longer visible to the application via H5Fget_obj_ids and H5Fget_obj_count. Tested: kagiso, linew, smirom (h5committest)
* [svn-r15792] Bug fix. When detecting the user requested filters, the "all" ↵Pedro Vicente Nunes2008-10-062-39/+67
| | | | | | option was not taken in consideration when printing the compression ratio Tested: windows, linux
* [svn-r15789] Purpose: Add new source file, H5EAsblock.c, to WindowsScott Wegner2008-10-062-0/+8
| | | | | | | Description: The source file H5EAsblock.c was recently added to svn. This checkin also adds it into our Windows project files. Note that it hasn't been included in the Visual Studio .NET projects. We are discontinuing our support for Visual Studio .NET in the trunk so we can use C99 features not available in Visual Studio .NET. From this point forward, the Visual Studio .NET projects won't be maintained, and will likely be deleted before the 1.10 release.
* [svn-r15772] Added feature to display file open and close times.Christian Chilan2008-10-031-4/+39
| | | | Tested on kagiso and cobalt.
* [svn-r15767] Fix version numbers in vms h5pubconf.hNeil Fortner2008-10-031-3/+3
| | | | Tested: gedit
* [svn-r15762] Changes for bug #1247 so that the user can specify the driverVailin Choi2008-10-036-25/+743
| | | | | | | | | | | | to use when opening the external linked target file. 1. Two new public routines are added to H5Plapl.c as well as "del/copy/close" callbacks for the property itself. 2. Modify H5L_extern_traverse() to use the fapl set via H5Pset_elink_fapl() and retrieve via H5Pget_elink_fapl(). 3. Add 3 tests to links.c to verify H5Pset/get_elink_fapl(). Also fix the compiler warning for the "if condition" in H5_build_extpath() of H5system.c.
* [svn-r15758] Description:Quincey Koziol2008-10-021-14/+78
| | | | | | | | | | | | | | | | | | | | | Extend extensible array tests Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15757] Bug #1312Pedro Vicente Nunes2008-10-022-148/+339
| | | | | | | Solution: Check for the existence of chunks before pruning them (an assertion was triggered when attempting to do so) Tested: windows , linux, solaris
* [svn-r15755] Description:Quincey Koziol2008-10-024-17/+117
| | | | | | | | | | | | | | | | | | | | | | Fix some minor problems w/extensible array super blocks and extend tests. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15749] Description:Scot Breitenfeld2008-10-012-4/+3
| | | | Removed blank lines
* [svn-r15748] Fixed spelling errorsScot Breitenfeld2008-10-011-3/+2
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* [svn-r15746] Description:Quincey Koziol2008-10-0118-33/+935
| | | | | | | | | | | | | | | | | | | | | Add support for extensible array "super block". Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
* [svn-r15744] Description:Scot Breitenfeld2008-10-012-15/+0
| | | | Removed extraneous comments and unused code.
* [svn-r15741] Description:Quincey Koziol2008-09-301-0/+5
| | | | | | | | | | | | | | | | | | | | | Extend testing for data block reachable from the index block. Tested on: Mac OS X/32 10.5.5 (amazon) in debug mode Mac OS X/32 10.5.5 (amazon) w/C++ & FORTRAN, w/threadsafe, in production mode FreeBSD/32 6.3 (duty) in debug mode FreeBSD/64 6.3 (liberty) w/C++ & FORTRAN, in debug mode Linux/32 2.6 (kagiso) w/PGI compilers, w/C++ & FORTRAN, w/threadsafe, in debug mode Linux/64-amd64 2.6 (smirom) w/Intel compilers w/default API=1.6.x, w/C++ & FORTRAN, in production mode Solaris/32 2.10 (linew) w/deprecated symbols disabled, w/C++ & FORTRAN, w/szip filter, in production mode Linux/64-ia64 2.6 (cobalt) w/Intel compilers, w/C++ & FORTRAN, in production mode Linux/64-ia64 2.4 (tg-login3) w/parallel, w/FORTRAN, in production mode Linux/64-amd64 2.6 (abe) w/parallel, w/FORTRAN, in production mode
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