With intel 2015.1.133 and gcc 5.1.0 in the path, error on make check with cxx interface

Mon Jun 1 11:11:02 CDT 2015

2015-06-01 17:09 GMT+02:00 Wei-keng Liao <wkliao at eecs.northwestern.edu>:

> Hi, Nick
>
> Your fix for the first bug makes all sense. I will add that to PnetCDF.
> Thanks.
>
> As for the second error, can you use gdb to print the location of the
> segmentation fault?
>
I haven't done that. I would rather not go that path? I ain't an avid user
of gdb (yet).

> Also, do both errors happen to Intel C compiler?
>
It is only the intel cxx compiler. I only show the gcc version as intel
uses that for compatibility issues. (see -gcc-name)
I thought that this could be problem... Maybe it isn't.

>
> The two C compilers you used are the latest ones. I have not tried them.
> Could you compile/run a simple C++ program to see if gcc works in your
> environment?
> Or, if you installed gcc from source, have you tried run "make -k check"?
> See https://gcc.gnu.org/install/test.html
>
> Gcc/g++ runs fine. I can compile 20 other different libraries with full
support. If anything, it is related to the intel compiler. :(

> If you do not need C++ component, you can build a PnetCDF without it, by
> adding option
> "--disable-cxx" to the configure command.
>
This is already my diverting methodology :) Thanks.

>
> By the way, I plan to release 1.6.1 today, but it will not fix the second
> error you are seeing.
> I will try if I can find those new versions of C compiler and fix the
> problem.
> The fix will have to wait for the next release, though.
>
Ok. :)

>
> Thanks again for reporting the problem.
>
You are welcome.
Thanks for the software.

>
> Wei-keng
>
> On Jun 1, 2015, at 1:00 AM, Nick Papior Andersen wrote:
>
> > I am trying to compile and make check with these compilers:
> > intel 2015.1.13
> > and
> > gcc 5.1.0 in the path.
> >
> > Compiling goes fine and everything seems to link correctly.
> > However make check errors out in the CXX test.
> >
> > First I get this error message:
> > ./nctst        ./testfile.nc
> > terminate called after throwing an instance of 'std::logic_error'
> >   what():  basic_string::_M_construct null not valid
> > [n-62-12-2:09803] *** Process received signal ***
> > [n-62-12-2:09803] Signal: Aborted (6)
> > [n-62-12-2:09803] Signal code:  (-6)
> > [n-62-12-2:09803] [ 0] /lib64/libpthread.so.0(+0xf710)[0x2aae4ac54710]
> > [n-62-12-2:09803] [ 1] /lib64/libc.so.6(gsignal+0x35)[0x2aae4ae94625]
> > [n-62-12-2:09803] [ 2] /lib64/libc.so.6(abort+0x175)[0x2aae4ae95e05]
> > [n-62-12-2:09803] [ 3]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(_ZN9__gnu_cxx27__verbose_terminate_handlerEv+0x15d)[0x2aae4a7428cd]
> > [n-62-12-2:09803] [ 4]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(+0x8c936)[0x2aae4a740936]
> > [n-62-12-2:09803] [ 5]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(+0x8c981)[0x2aae4a740981]
> > [n-62-12-2:09803] [ 6]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(+0x8cb98)[0x2aae4a740b98]
> > [n-62-12-2:09803] [ 7]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(_ZSt19__throw_logic_errorPKc+0x3f)[0x2aae4a767faf]
> > [n-62-12-2:09803] [ 8] ./nctst[0x461b42]
> > [n-62-12-2:09803] [ 9] ./nctst[0x4644b6]
> > [n-62-12-2:09803] [10] ./nctst[0x40c313]
> > [n-62-12-2:09803] [11] ./nctst[0x409f60]
> > [n-62-12-2:09803] [12]
> /lib64/libc.so.6(__libc_start_main+0xfd)[0x2aae4ae80d5d]
> > [n-62-12-2:09803] [13] ./nctst[0x409cb9]
> > [n-62-12-2:09803] *** End of error message ***
> >
> >
> > Secondly I change in file src/libcxx/ncmpiType.cpp:
> > function inq_type has 'return NULL' which cannot be done using returns
> of string (unless it is a pointer, which it isn't)
> > So I change it to an empty string:
> > 'return ""'
> > (I am not sure when this is reached, but the error message changes as
> can be seen below, hence my suspicion is at that code segment)
> >
> > Now I recompile and get this alternate error message:
> > ./nctst        ./testfile.nc
> > [n-62-12-2:23419] *** Process received signal ***
> > [n-62-12-2:23419] Signal: Segmentation fault (11)
> > [n-62-12-2:23419] Signal code: Address not mapped (1)
> > [n-62-12-2:23419] Failing at address: 0xffffffffffffffe8
> > [n-62-12-2:23419] [ 0] /lib64/libpthread.so.0(+0xf710)[0x2ab6b02fa710]
> > [n-62-12-2:23419] [ 1]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(_ZNSo6sentryC2ERSo+0x19)[0x2ab6afe61e79]
> > [n-62-12-2:23419] [ 2]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(_ZSt16__ostream_insertIcSt11char_traitsIcEERSt13basic_ostreamIT_T0_ES6_PKS3_l+0x29)[0x2ab6afe62589]
> > [n-62-12-2:23419] [ 3]
> /zdata/groups/common/nicpa/2015-test/generic/gcc/5.1.0/lib64/libstdc++.so.6(_ZStlsISt11char_traitsIcEERSt13basic_ostreamIcT_ES5_PKc+0x27)[0x2ab6afe629e7]
> > [n-62-12-2:23419] [ 4] ./nctst[0x40d4a5]
> > [n-62-12-2:23419] [ 5] ./nctst[0x409f60]
> > [n-62-12-2:23419] [ 6]
> /lib64/libc.so.6(__libc_start_main+0xfd)[0x2ab6b0526d5d]
> > [n-62-12-2:23419] [ 7] ./nctst[0x409cb9]
> > [n-62-12-2:23419] *** End of error message ***
> > make[2]: *** [testing] Segmentation fault
> >
> > There seem to be something fishy with the cxx interface?
> > I am no expert in cxx... :( So had troubles debugging further...
> >
> > --
> > Kind regards Nick
>
>


-- 
Kind regards Nick
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