[Insight-developers] Problem again in NRRDIO

Tue Mar 23 14:42:45 EDT 2010

The other libraries have instructions like this:
The following commands were used to obtain the symbol list:

nm libitktiff.a |grep " T "
nm libitktiff.a |grep " D "
nm libitktiff.a |grep " R "

which is similar to what the pl script is doing.

On Tue, Mar 23, 2010 at 11:30 AM, Gordon L. Kindlmann <glk at uchicago.edu> wrote:
> Hi,
>
> Yes, grepping for those symbols on the "nm" output on Michel's NrrdIO build
> will clarify how to correctly filter the results in the mangle.pl script,
> which can be fixed.
>
> On the other hand, it would be interesting to learn how other libraries
> (zlib, png) are name-mangled: are there automatic scripts, or were symbol
> lists generated by hand?
>
> Gordon
>
> On Mar 23, 2010, at 1:12 PM, Bill Lorensen wrote:
>
>> Is it possible to fix the mangle.pl script? Otherwise, this will happen
>> again.
>>
>> Bill
>>
>> On Tue, Mar 23, 2010 at 11:10 AM, Michel Audette
>> <michel.audette at kitware.com> wrote:
>>>
>>> Hi gents,
>>>
>>> I'll look into this later today and tomorrow.
>>>
>>> Daniel, sorry about your tribulations. It's possible that my edits caused
>>> bugs not picked up by the existing tests.
>>>
>>> I'll report back shortly.
>>>
>>> Best wishes,
>>>
>>> Michel
>>>
>>> On Tue, Mar 23, 2010 at 2:07 PM, Gordon L. Kindlmann <glk at uchicago.edu>
>>> wrote:
>>>>
>>>> Hello,
>>>>
>>>> Shoot- sorry about this; I was just thinking the NrrdIO update was
>>>> finished!
>>>>
>>>> There indeed probably aren't any tests for checking compiling
>>>> applications
>>>> against both Teem (containing the air, biff, and nrrd libraries that
>>>> these
>>>> symbols are coming from) and ITK (containing NrrdIO, the fraction of
>>>> Teem
>>>> required for Nrrd file IO).  Aren't Slicer builds doing this?  Are there
>>>> analogous tests for, say, compiling applications against non-ITK zlib
>>>> and
>>>> ITK name-mangled zlib, which can be copied from?
>>>>
>>>> I can tell that these names are for the global variables that exist in
>>>> NrrdIO.  These are probably not getting correctly picked up from the
>>>> list of
>>>> symbols in the NrrdIO library, which mangle.pl does by using "nm".
>>>>
>>>> Michel, can go through the NrrdIO process on whatever platform you used
>>>> last, and at the point of running mangle.pl, can you run "nm" manually
>>>> and
>>>> grep for, say, _nrrdStateGrayscaleImage3D, and see how that symbol is
>>>> identified?  Line 66 of mangle.pl apparently is missing this.
>>>>
>>>> Gordon
>>>>
>>>> On Mar 23, 2010, at 12:33 PM, Daniel Blezek wrote:
>>>>
>>>>> Hi,
>>>>>
>>>>>  We link both against NRRD and ITK in our applications.  At the end of
>>>>> February, the mangled ITK names were changed from what I fixed.
>>>>>  Clearly,
>>>>> this is not tested properly, because today I updated ITK and re-built:
>>>>>
>>>>> 34>ITKNrrdIO.lib(string.obj) : error LNK2005: _airStrtokQuoting already
>>>>> defined in teem.lib(string.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005: _nrrdStateVerboseIO
>>>>> already defined in teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005:
>>>>> _nrrdStateKeyValuePairsPropagate already defined in
>>>>> teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005:
>>>>> _nrrdStateDisableContent already defined in teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005:
>>>>> _nrrdStateGrayscaleImage3D already defined in
>>>>> teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005:
>>>>> _nrrdStateKeyValueReturnInternalPointers already defined in
>>>>> teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(defaultsNrrd.obj) : error LNK2005: _nrrdStateKindNoop
>>>>> already defined in teem.lib(defaultsNrrd.obj)
>>>>> 34>ITKNrrdIO.lib(biffmsg.obj) : error LNK2005: __biffMsgNoop already
>>>>> defined in teem.lib(biffmsg.obj)
>>>>> 34>ITKNrrdIO.lib(dio.obj) : error LNK2005: _airDisableDio already
>>>>> defined
>>>>> in teem.lib(dio.obj)
>>>>>
>>>>> Could “Michel” (according to CVS) please have a closer look at this?  I
>>>>> had tweaked this once before, and my changes were blown away by the
>>>>> (broken)
>>>>> mangle.pl script.
>>>>>
>>>>> I’ll go back through and manually add the names if necessary.
>>>>>
>>>>> Cheers,
>>>>> -dan
>>>>>
>>>>> --
>>>>> Daniel Blezek, PhD
>>>>> Medical Imaging Informatics Innovation Center
>>>>>
>>>>> P 127 or (77) 8 8886
>>>>> T 507 538 8886
>>>>> E blezek.daniel at mayo.edu
>>>>>
>>>>> Mayo Clinic
>>>>> 200 First St. S.W.
>>>>> Harwick SL-44
>>>>> Rochester, MN 55905
>>>>> mayoclinic.org
>>>>>
>>>>> _______________________________________________
>>>>> Powered by www.kitware.com
>>>>>
>>>>> Visit other Kitware open-source projects at
>>>>> http://www.kitware.com/opensource/opensource.html
>>>>>
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>>>>> Please keep messages on-topic and check the ITK FAQ at:
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>>>>
>>>> _______________________________________________
>>>> Powered by www.kitware.com
>>>>
>>>> Visit other Kitware open-source projects at
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>>>>
>>>> Kitware offers ITK Training Courses, for more information visit:
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>>>>
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>>>
>>>
>>>
>>> --
>>> Michel Audette, Ph.D.
>>> R & D Engineer,
>>> Kitware Inc.,
>>> Chapel Hill, N.C.
>>>
>>>
>>> _______________________________________________
>>> Powered by www.kitware.com
>>>
>>> Visit other Kitware open-source projects at
>>> http://www.kitware.com/opensource/opensource.html
>>>
>>> Kitware offers ITK Training Courses, for more information visit:
>>> http://kitware.com/products/protraining.html
>>>
>>> Please keep messages on-topic and check the ITK FAQ at:
>>> http://www.itk.org/Wiki/ITK_FAQ
>>>
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>>>
>>
>
>