Could you please check that th5s.h5 is indeed in the test directory?
On Jun 25, 2011, at 2:35 PM, Michael Bane wrote:
> Editting config/intel-flags then a fresh ./configure sorted that, thanks.
> Done a
> make clean && make -j 12 && make test
> but still see the problem...
>
> Ta, M
> <config.log>
> On 25 Jun 2011, at 11:13, Elena Pourmal wrote:
>
>> Michael,
>>
>> Then you have to modify intel-flags file (or did you already ?)
>>
>> Elena
>> On Jun 25, 2011, at 1:30 PM, Michael Bane wrote:
>>
>>> I've tried setting CC as you said but at 'make' stage it's being ignored it
>>> seems:
>>>
>>> [mccssmb2@redqueen hdf5-1.8.7]$ make
>>> Making all in src
>>> make[1]: Entering directory `/software/hdf/5/1.8.7/hdf5-1.8.7/src'
>>> make all-am
>>> make[2]: Entering directory `/software/hdf/5/1.8.7/hdf5-1.8.7/src'
>>> CC H5.lo
>>> icc: command line warning #10120: overriding '-O2' with '-O3'
>>> H5.c(532): (col. 3) remark: LOOP WAS VECTORIZED.
>>> H5.c(532): (col. 3) remark: LOOP WAS VECTORIZED.
>>> CC H5checksum.lo
>>> icc: command line warning #10120: overriding '-O2' with '-O3'
>>> CC H5dbg.lo
>>> icc: command line warning #10120: overriding '-O2' with '-O3'
>>>
>>>
>>> On 24 Jun 2011, at 19:43, Elena Pourmal wrote:
>>>
>>>> Michael,
>>>>
>>>> In 1.8.7 we enabled -O3 optimization for C Intel compiler. May be the
>>>> higher level of optimization doesn't work on your machine (errors sound
>>>> familiar, but I may be wrong)
>>>>
>>>> Could you please set CC to "icc -O2" and recompile the library, or fix the
>>>> config/intel-flags file (search 1.8.7 string to find the right place).
>>>>
>>>> Thank you!
>>>>
>>>> Elena
>>>> On Jun 24, 2011, at 4:01 PM, michael bane wrote:
>>>>
>>>>> My hdf5 1.8.7 appears to build okay but my make check fails. This is on a
>>>>> Sci Linux box:
>>>>> uname -a
>>>>> Linux redqueen.rcs.manchester.ac.uk 2.6.18-238.1.1.el5 #1 SMP Tue Jan 18
>>>>> 18:49:37 EST 2011 x86_64 x86_64 x86_64 GNU/Linux
>>>>>
>>>>> I attach the std out+err from my configure and make steps. And here is
>>>>> the detailed error
>>>>>
>>>>> [mccssmb2@redqueen hdf5-1.8.7]$
>>>>> /software/hdf/5/1.8.7/hdf5-1.8.7/test/.libs/lt-testhdf5 -vv -o select
>>>>> 2>&1 | less
>>>>>
>>>>> For help use: /software/hdf/5/1.8.7/hdf5-1.8.7/test/.libs/lt-testhdf5
>>>>> -help
>>>>> Linked with hdf5 version 1.8 release 7
>>>>> Testing -- Configure definitions (config)
>>>>> Testing -- Encoding/decoding metadata (metadata)
>>>>> Testing -- Checksum algorithm (checksum)
>>>>> Testing -- Ternary Search Trees (tst)
>>>>> Testing -- Memory Heaps (heap)
>>>>> Testing -- Skip Lists (skiplist)
>>>>> Testing -- Reference Counted Strings (refstr)
>>>>> Testing -- Low-Level File I/O (file)
>>>>> Testing -- Generic Object Functions (objects)
>>>>> Testing -- Dataspaces (h5s)
>>>>> *** UNEXPECTED RETURN from H5Fopen is -1 line 188 in th5s.c
>>>>> HDF5-DIAG: Error detected in HDF5 (1.8.7) thread 0:
>>>>> #000: H5F.c line 1522 in H5Fopen(): unable to open file
>>>>> major: File accessability
>>>>> minor: Unable to open file
>>>>> #001: H5F.c line 1211 in H5F_open(): unable to open file: time = Fri Jun
>>>>> 24 12:41:23 2011
>>>>> , name = 'th5s.h5', tent_flags = 0
>>>>> major: File accessability
>>>>> minor: Unable to open file
>>>>> #002: H5FD.c line 1086 in H5FD_open(): open failed
>>>>> major: Virtual File Layer
>>>>> minor: Unable to initialize object
>>>>> #003: H5FDsec2.c line 348 in H5FD_sec2_open(): unable to open file: name
>>>>> = 'th5s.h5', errno = 2, error mess
>>>>> age = 'No such file or directory', flags = 0, o_flags = 0
>>>>> major: File accessability
>>>>> minor: Unable to open file
>>>>> ***cannot open the pre-created H5S_MAX_RANK test file (th5s.h5)
>>>>> Testing -- Dataspace coordinates (coords)
>>>>> Testing -- Shared Object Header Messages (sohm)
>>>>> Testing -- Attributes (attr)
>>>>> Testing -- Selections (select)
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube written from small cube has bad data! Line=2256
>>>>> large cube written from small cube has bad data! Line=2256
>>>>> large cube written from small cube has bad data! Line=2256
>>>>> large cube written from small cube has bad data! Line=2256
>>>>> large cube written from small cube has bad data! Line=2256
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> large cube read from small cube has bad data! Line=2015
>>>>> {& much more of same}
>>>>>
>>>>>
>>>>> Many thanks, Michael
>>>>> <mkb_make.txt><mkb_configure.txt>_______________________________________________
>>>>> Hdf-forum is for HDF software users discussion.
>>>>> [email protected]
>>>>> http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org
>>>>
>>>>
>>>> _______________________________________________
>>>> Hdf-forum is for HDF software users discussion.
>>>> [email protected]
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>>>
>>>
>>> _______________________________________________
>>> Hdf-forum is for HDF software users discussion.
>>> [email protected]
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>>
>>
>> _______________________________________________
>> Hdf-forum is for HDF software users discussion.
>> [email protected]
>> http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org
>
> _______________________________________________
> Hdf-forum is for HDF software users discussion.
> [email protected]
> http://mail.hdfgroup.org/mailman/listinfo/hdf-forum_hdfgroup.org
_______________________________________________
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