[Tubetk-developers] runtime error

Stephen Aylward stephen.aylward at kitware.com
Sun Feb 2 21:35:08 EST 2014 

Hi

>From an empty build directory, please set Slicer_DIR and
QT_QMAKE_EXECUTABLE.  I am doing this from.memory, so the names might be
slightly off.  The command will be

cmake -DSlicer_DIR:path=<enter path here> -DQT_QMAKE_EXECUTABLE:path=<path
to your qmake> -DTubeTK_USE_SLICER:bool=ON <path to tubetk source>

Or something close to that.  I can get the specifics when at work later.

S

--
Sent via phone.  Please excuse the brevity and typos.

--
Stephen R. Aylward, Ph.D.
Senior Director of Operations
Kitware, North Carolina
On Feb 2, 2014 7:58 PM, "Wei Liu" <weiliu620 at gmail.com> wrote:

> Stephen,
>
> My system does have qmake at /usr/bin, as shown by 'which qmake'. When
> running ccmake the first time for TubeTK, ccmake found this system qmake.
> Once I choose to build Slicer extension and give the Slicer-build
> directory, I got the following error:
>
>  CMake Error at
> /home/sci/weiliu/projects/Slicer-SuperBuild-Rel/Slicer-build/SlicerConfig.cmake:547
> (message):
>    Variable QT_QMAKE_EXECUTABLE defined prior calling
> 'find_package(Slicer)'
>    does NOT match value used to configure Slicer.  It probably means that a
>    different QT_QMAKE_EXECUTABLE has been used to configure this project
> and
>    Slicer.
>
>    QT_QMAKE_EXECUTABLE=/usr/bin/qmake
>
>
>
>  Slicer_QT_QMAKE_EXECUTABLE=/home/sci/weiliu/QtSDK/Desktop/Qt/474/gcc/bin/qmake
>  Call Stack (most recent call first):
>
>  /home/sci/weiliu/projects/Slicer-SuperBuild-Rel/Slicer-build/SlicerConfig.cmake:565
> (slicer_config_set_ep)
>    CMakeLists.txt:175 (find_package)
>
>
>
>
> To get rid of this error, I have to manually set the qmake to the one in
> the QtSDK that I downloaded from Slicer website.
>
> Wei
>
>
> On Sun, Feb 2, 2014 at 5:47 PM, Stephen Aylward <
> stephen.aylward at kitware.com> wrote:
>
>> Ah.  It shouldn't be asking for qmake.  It should get that from the
>> slicer build info.
>>
>> Perhaps it is mixing a system qt with the version used to build slicer.
>> We have tested that in the past,  but it might not be working now.
>>
>> If you type "which qmake" does it return a path to another qmake?
>>
>> S
>> --
>> Sent via phone.  Please excuse the brevity and typos.
>>
>> --
>> Stephen R. Aylward, Ph.D.
>> Senior Director of Operations
>> Kitware, North Carolina
>> On Feb 2, 2014 6:42 PM, "Wei Liu" <weiliu620 at gmail.com> wrote:
>>
>>> Christopher,
>>>
>>> Here is what I found under the QT SDK directory that I downloaded from
>>> Slicer website:
>>>
>>> weiliu at wukong:~/QtSDK/Desktop/Qt/474/gcc/lib> ll libQtWebKit.*
>>> -rw-r--r-- 1 weiliu sci      934 Jan 22 10:29 libQtWebKit.la
>>> lrwxrwxrwx 1 weiliu sci       20 Jan 22 10:29 libQtWebKit.so ->
>>> libQtWebKit.so.4.7.4
>>> lrwxrwxrwx 1 weiliu sci       20 Jan 22 10:29 libQtWebKit.so.4 ->
>>> libQtWebKit.so.4.7.4
>>> lrwxrwxrwx 1 weiliu sci       20 Jan 22 10:29 libQtWebKit.so.4.7 ->
>>> libQtWebKit.so.4.7.4
>>> -rwxr-xr-x 1 weiliu sci 22791816 Jan 22 10:29 libQtWebKit.so.4.7.4
>>>
>>> In the ccmake of TubeTK, if I just set Slicer build directory in order
>>> to build Slicer extension, I got error that says qmake should be same with
>>> the one that is used to build Slicer. So I point the qmake to the one under
>>> QT SDK. The configuration then goes through, so I suppose the setting is
>>> correct.
>>>
>>> Wei
>>>
>>>
>>> On Sun, Feb 2, 2014 at 4:32 PM, Christopher Mullins <
>>> christopher.mullins at kitware.com> wrote:
>>>
>>>> Can you confirm that you built or installed Qt with webkit?  You should
>>>> have the file libQtWebKit.so somewhere in the build tree or installation
>>>> directory.  Also make sure your QT_QMAKE_EXECUTABLE is set correctly.
>>>>
>>>>
>>>> On Sun, Feb 2, 2014 at 5:40 PM, Wei Liu <weiliu620 at gmail.com> wrote:
>>>>
>>>>> Stephen,
>>>>>
>>>>> I did what you suggested. However, after step 3) and choose
>>>>> 'configure' in ccmake, I got the same error message that I reported to you
>>>>> in a different email thread.  The error is:
>>>>>
>>>>>  CMake Error at
>>>>> /home/sci/weiliu/packages/Slicer/CMake/SlicerBlockFindQtAndCheckVersion.cmake:43
>>>>> (message):
>>>>>    error: Missing Qt module QTWEBKIT
>>>>>  Call Stack (most recent call first):
>>>>>
>>>>>  /home/sci/weiliu/packages/Slicer/CMake/SlicerBlockFindQtAndCheckVersion.cmake:72
>>>>> (__SlicerBlockFindQtAndCheckVersion_find_qt)
>>>>>
>>>>>  /home/sci/weiliu/projects/Slicer-SuperBuild-Rel/Slicer-build/SlicerConfig.cmake:760
>>>>> (include)
>>>>>    CMakeLists.txt:175 (find_package)
>>>>>
>>>>>
>>>>> I've made sure that I start from an empty build directory. By the way,
>>>>> my Slicer build is a good one. I used a customized QT SDK (version 474)
>>>>> from [1].
>>>>>
>>>>> [1]
>>>>> http://www.slicer.org/slicerWiki/index.php/Documentation/Nightly/Developers/Build_Instructions/Prerequisites/Qt#Download_Qt:_Source_and_Binaries
>>>>>
>>>>> Wei
>>>>>
>>>>>
>>>>> On Sun, Feb 2, 2014 at 1:40 PM, Stephen Aylward <
>>>>> stephen.aylward at kitware.com> wrote:
>>>>>
>>>>>> Only options to change are
>>>>>>
>>>>>> 1) TubeTK_BUILD_SLICER_EXTENSION = ON
>>>>>> 2) TubeTK_USE_SLICER = ON
>>>>>>
>>>>>> Then type [c] to configure.  This will produce an error message if
>>>>>> Slicer isn't automatically found...so
>>>>>>
>>>>>> 3) Slicer_DIR = <YourPathToSlicerBuild>/Slicer-build
>>>>>> -- Yes, point it to the Slicer-build subdir that is within the
>>>>>> top-level directory in which Slicer was built.
>>>>>>
>>>>>> Do not change any other options.
>>>>>>
>>>>>> You should do this in an empty build directory.  There are likely to
>>>>>> be problems if you try to switch a current build from being a
>>>>>> stand-alone build to being a Slicer-dependent build.
>>>>>>
>>>>>> s
>>>>>>
>>>>>>
>>>>>> On Sun, Feb 2, 2014 at 2:49 PM, Wei Liu <weiliu620 at gmail.com> wrote:
>>>>>> > Thanks, Matt and Stephen. I checked the CmakeOutput.log file under
>>>>>> VTK-build
>>>>>> > and didn't find any errors. Is that the best way to check build
>>>>>> logs?
>>>>>> >
>>>>>> > I do have a recent Slicer build that includes VTK. Let me try to
>>>>>> point
>>>>>> > TubeTK to it and see what happens.
>>>>>> >
>>>>>> > Wei
>>>>>> >
>>>>>> >
>>>>>> > On Sun, Feb 2, 2014 at 12:34 PM, Stephen Aylward
>>>>>> > <stephen.aylward at kitware.com> wrote:
>>>>>> >>
>>>>>> >> Also, Ricardo is building it on opensuse.   It seems to be failing
>>>>>> on the
>>>>>> >> vtk build.  Perhaps try building vtk on its own via vtk.org or
>>>>>> build slicer
>>>>>> >> and point tubetk to it...see slicer.org
>>>>>> >>
>>>>>> >> S
>>>>>> >>
>>>>>> >> --
>>>>>> >> Sent via phone.  Please excuse the brevity and typos.
>>>>>> >>
>>>>>> >> --
>>>>>> >> Stephen R. Aylward, Ph.D.
>>>>>> >> Senior Director of Operations
>>>>>> >> Kitware, North Carolina
>>>>>> >>
>>>>>> >> On Feb 2, 2014 2:31 PM, "Matt McCormick" <
>>>>>> matt.mccormick at kitware.com>
>>>>>> >> wrote:
>>>>>> >>>
>>>>>> >>> Hi Wei,
>>>>>> >>>
>>>>>> >>> Builds reporting to the dashboard should be reproducible (there is
>>>>>> >>> Debian Stable and Ubuntu 12.04 and 13.04 reporting):
>>>>>> >>>
>>>>>> >>>   http://open.cdash.org/index.php?project=TubeTK
>>>>>> >>>
>>>>>> >>> If further help is needed, we can give personalized attention
>>>>>> with a
>>>>>> >>> support contract:
>>>>>> >>>
>>>>>> >>>   http://www.kitware.com/products/support.html
>>>>>> >>>
>>>>>> >>> Thanks,
>>>>>> >>> Matt
>>>>>> >>>
>>>>>> >>> On Sun, Feb 2, 2014 at 11:51 AM, Wei Liu <weiliu620 at gmail.com>
>>>>>> wrote:
>>>>>> >>> > Oops, I sent previous email before finishing it.
>>>>>> >>> >
>>>>>> >>> > Yes Matt, I meant TubeTK_USE_VTK.  So, I started a clean build,
>>>>>> with
>>>>>> >>> > all
>>>>>> >>> > cmake options set to default (the UtbeT_USE_VTK = ON). Now I
>>>>>> have
>>>>>> >>> > different
>>>>>> >>> > errors:
>>>>>> >>> >
>>>>>> >>> > ./CropImage: symbol lookup error:
>>>>>> >>> >
>>>>>> >>> >
>>>>>> /home/sci/weiliu/packages/TubeTK-Release/VTK-build/bin/libvtkInfovis.so.5.10:
>>>>>> >>> > undefined symbol: _ZTI8vtkArray
>>>>>> >>> >
>>>>>> >>> > I don't remember the exact difference between this build and the
>>>>>> >>> > previous
>>>>>> >>> > one. The difference may be some Cmake options.
>>>>>> >>> >
>>>>>> >>> > Do you suggest me to use another OS, like ubuntu or
>>>>>> Redhat-based OS?
>>>>>> >>> >
>>>>>> >>> > Wei
>>>>>> >>> >
>>>>>> >>> >
>>>>>> >>> >
>>>>>> >>> > On Fri, Jan 31, 2014 at 5:46 PM, Matt McCormick
>>>>>> >>> > <matt.mccormick at kitware.com>
>>>>>> >>> > wrote:
>>>>>> >>> >>
>>>>>> >>> >> Hmm, the only variable that should be adjusted should be called
>>>>>> >>> >> TubeTK_USE_VTK.
>>>>>> >>> >>
>>>>>> >>> >> Starting a clean build with the defaults is good first step.
>>>>>> >>> >>
>>>>>> >>> >> Thanks,
>>>>>> >>> >> Matt
>>>>>> >>> >>
>>>>>> >>> >> On Fri, Jan 31, 2014 at 7:35 PM, Wei Liu <weiliu620 at gmail.com>
>>>>>> wrote:
>>>>>> >>> >> > Matt,
>>>>>> >>> >> >
>>>>>> >>> >> > I didn't install VTK in the system, and I double checked the
>>>>>> >>> >> > /usr/lib
>>>>>> >>> >> > and
>>>>>> >>> >> > lib64 directory.
>>>>>> >>> >> >
>>>>>> >>> >> > I built with the USE_VTK set to off. Is that a possible
>>>>>> reason? I'm
>>>>>> >>> >> > re-building TubeTK with it on now.
>>>>>> >>> >> >
>>>>>> >>> >> > Wei
>>>>>> >>> >> >
>>>>>> >>> >> >
>>>>>> >>> >> >
>>>>>> >>> >> >
>>>>>> >>> >> > On Fri, Jan 31, 2014 at 4:08 PM, Matt McCormick
>>>>>> >>> >> > <matt.mccormick at kitware.com>
>>>>>> >>> >> > wrote:
>>>>>> >>> >> >>
>>>>>> >>> >> >> Hi Wei,
>>>>>> >>> >> >>
>>>>>> >>> >> >> This is not expected.  Is a system VTK installed?
>>>>>> >>> >> >>
>>>>>> >>> >> >> Thanks,
>>>>>> >>> >> >> Matt
>>>>>> >>> >> >>
>>>>>> >>> >> >>
>>>>>> >>> >> >>
>>>>>> >>> >> >> On Fri, Jan 31, 2014 at 5:58 PM, Wei Liu <
>>>>>> weiliu620 at gmail.com>
>>>>>> >>> >> >> wrote:
>>>>>> >>> >> >> > Dear TubeTK developers,
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > I've successfully built TubeTK in release mode. But when
>>>>>> I try to
>>>>>> >>> >> >> > run
>>>>>> >>> >> >> > one of
>>>>>> >>> >> >> > the commands in TubeTK-build/bin/ I got the following
>>>>>> error:
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > ./CropImage: symbol lookup error:
>>>>>> >>> >> >> >
>>>>>> >>> >> >> >
>>>>>> >>> >> >> >
>>>>>> >>> >> >> >
>>>>>> /home/sci/weiliu/packages/TubeTK-Release/VTK-build/bin/libvtkInfovis.so.5.10:
>>>>>> >>> >> >> > undefined symbol: _ZTI21vtkArrayDataAlgorithm
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > I'm using gcc 4.7.1 under opensuse 12.2 64 bit. And I
>>>>>> just let
>>>>>> >>> >> >> > tubetk
>>>>>> >>> >> >> > to
>>>>>> >>> >> >> > build everything including ITK and VTK. Actually I got
>>>>>> the same
>>>>>> >>> >> >> > error
>>>>>> >>> >> >> > when
>>>>>> >>> >> >> > trying to run other commands.
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > Is this error expected at this stage of development?
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > Thanks,
>>>>>> >>> >> >> > Wei
>>>>>> >>> >> >> >
>>>>>> >>> >> >> > _______________________________________________
>>>>>> >>> >> >> > Tubetk-developers mailing list
>>>>>> >>> >> >> > Tubetk-developers at tubetk.org
>>>>>> >>> >> >> >
>>>>>> >>> >> >> >
>>>>>> http://public.kitware.com/cgi-bin/mailman/listinfo/tubetk-developers
>>>>>> >>> >> >> >
>>>>>> >>> >> >
>>>>>> >>> >> >
>>>>>> >>> >
>>>>>> >>> >
>>>>>> >>> _______________________________________________
>>>>>> >>> Tubetk-developers mailing list
>>>>>> >>> Tubetk-developers at tubetk.org
>>>>>> >>>
>>>>>> http://public.kitware.com/cgi-bin/mailman/listinfo/tubetk-developers
>>>>>> >
>>>>>> >
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>>
>>>>>> ====================================================
>>>>>> Stephen R. Aylward, Ph.D.
>>>>>> Senior Director of Operations, North Carolina, Kitware, Inc.
>>>>>> http://www.kitware.com
>>>>>> http://www.aylward.org
>>>>>> (919) 969-6990 x300
>>>>>> ====================================================
>>>>>>
>>>>>
>>>>>
>>>>> _______________________________________________
>>>>> Tubetk-developers mailing list
>>>>> Tubetk-developers at tubetk.org
>>>>> http://public.kitware.com/cgi-bin/mailman/listinfo/tubetk-developers
>>>>>
>>>>>
>>>>
>>>>
>>>> --
>>>> Christopher Mullins
>>>> R&D Engineer
>>>> Kitware Inc.,
>>>> 919.869.8871
>>>>
>>>
>>>
>
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