[Paraview] how to build the paraview superbuild with mesa on a cluster (where user is not a root user)

Ezhilmathi Krishnasamy ezhkr601 at student.liu.se
Sun Jul 2 08:54:05 EDT 2017 

Hi,

I have almost build it, but getting this error:

 CMake Warning (dev) at
/pdc/vol/anaconda/4.3/py36/lib/cmake/Qt5Core/Qt5CoreConfig.cmake:115
(add_library):
   ADD_LIBRARY called with SHARED option but the target platform does not
   support dynamic linking.  Building a STATIC library instead.  This may
lead
   to problems.
 Call Stack (most recent call first):
   /pdc/vol/anaconda/4.3/py36/lib/cmake/Qt5/Qt5Config.cmake:26
(find_package)
   superbuild/projects/qt5.system.cmake:1 (find_package)
   superbuild/cmake/SuperbuildMacros.cmake:640 (include)
   superbuild/CMakeLists.txt:115 (superbuild_process_dependencies)
 This warning is for project developers.  Use -Wno-dev to suppress it.



On 2 July 2017 at 14:17, Ezhilmathi Krishnasamy <ezhkr601 at student.liu.se>
wrote:

> Thanks!
>
> Now it shows this kind of error
>
> /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superbuild>
> git fetch origin
> /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superbuild>
> git checkout v5.4.0
> HEAD is now at 7c510fe... Update to 5.4.0
> /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superbuild>
> git submodule update
> /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superbuild>
> cd ..
> /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD> cd ..
> /cfs/klemming/nobackup/k/kriezh> cd build/
> /cfs/klemming/nobackup/k/kriezh/build> ccmake ../PARAVIEW_SUPER_BUILD/
> paraview-superbuild/
>
>
>  CMake Error at superbuild/cmake/SuperbuildMacros.cmake:289 (message):
>    The build tree appears to be inside of the git repository located at
>    /cfs/klemming/nobackup/k/kriezh.  This interferes with the way the
>    superbuild applies patches to projects and is not supported.  Please
>    relocate the build tree to a directory which is not under a git
> repository.
>  Call Stack (most recent call first):
>    superbuild/projects/bzip2.cmake:7 (superbuild_apply_patch)
>    superbuild/cmake/SuperbuildMacros.cmake:477 (include)
>    superbuild/CMakeLists.txt:113 (_superbuild_discover_projects)
>
>
>
>
> On 2 July 2017 at 14:03, Patrick Bégou <Patrick.Begou at legi.grenoble-inp.fr
> > wrote:
>
>> Like you, I got this error some months ago when trying to build paraview
>> superbuild:
>>
>> *error: unknown option `is-ancestor'*
>>
>> It was my git version wich was too old. May be try to compile a more up
>> to date version of git in your home and set the path to access it.
>>
>> I have installed git from https://www.kernel.org/pub/sof
>> tware/scm/git/git-2.12.2.tar.xz
>>
>> Patrick
>>
>> Ezhilmathi Krishnasamy a écrit :
>>
>> Hi,
>>
>> I have followed these instructions. I am trying to install it where I am
>> not a root user.
>> Can someone help to fix this issue.
>>
>>  git clone --recursive https://gitlab.kitware.com/par
>> aview/paraview-superbuild.git
>>  cd paraview-superbuild
>>  git fetch origin # ensure you have the latest state from the main repo
>>  git checkout v5.2.0 # replace `v5.2.0` with tag name of your choice
>>  git submodule update
>>
>>  cd ..
>>  mkdir build
>>  cd build
>>  ccmake ../paraview-superbuild
>>
>> Kind regards,
>> Mathi
>>
>>
>> On 30 June 2017 at 18:54, Ezhilmathi Krishnasamy <ezhkr601 at student.liu.se
>> > wrote:
>>
>>> Hi Thanks!
>>>
>>> When I try to install Paraview,  I am getting the following error.
>>> Could some one please tell me how to fix this issue.
>>> I am trying to install the Paraview on a super computer to use it
>>> for remote rendering without using the GUI,  like with mesa support.
>>>
>>> kriezh at beskow-login2:/cfs/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD> git
>>> clone --recursive https://gitlab.kitware.com/par
>>> aview/paraview-superbuild.git
>>> Cloning into 'paraview-superbuild'...
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> remote: Counting objects: 6723, done.
>>> remote: Compressing objects: 100% (2459/2459), done.
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> remote: Total 6723 (delta 4451), reused 6342 (delta 4201)
>>> Receiving objects: 100% (6723/6723), 2.05 MiB | 741 KiB/s, done.
>>> Resolving deltas: 100% (4451/4451), done.
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> Checking out files: 100% (196/196), done.
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> Submodule 'superbuild' (https://gitlab.kitware.com/pa
>>> raview/common-superbuild.git) registered for path 'superbuild'
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> Cloning into 'superbuild'...
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> remote: Counting objects: 6752, done.
>>> remote: Compressing objects: 100% (2235/2235), done.
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> remote: Total 6752 (delta 4505), reused 6574 (delta 4395)
>>> Receiving objects: 100% (6752/6752), 1.59 MiB | 592 KiB/s, done.
>>> Resolving deltas: 100% (4505/4505), done.
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> Submodule path 'superbuild': checked out '8f357bb5bf35419c210b3f9e0adbc
>>> 9df08f565f2'
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>> warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission denied
>>>
>>>
>>> kriezh at beskow-login2:/cfs/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superbuild>
>>> cmake .
>>> -- The C compiler identification is Intel 14.0.4.20140805
>>> -- The CXX compiler identification is Intel 14.0.4.20140805
>>> -- Cray Programming Environment 2.2.1 C
>>> -- Check for working C compiler: /opt/cray/craype/2.2.1/bin/cc
>>> -- Check for working C compiler: /opt/cray/craype/2.2.1/bin/cc -- works
>>> -- Detecting C compiler ABI info
>>> -- Detecting C compiler ABI info - done
>>> -- Detecting C compile features
>>> -- Detecting C compile features - done
>>> -- Cray Programming Environment 2.2.1 CXX
>>> -- Check for working CXX compiler: /opt/cray/craype/2.2.1/bin/CC
>>> -- Check for working CXX compiler: /opt/cray/craype/2.2.1/bin/CC -- works
>>> -- Detecting CXX compiler ABI info
>>> -- Detecting CXX compiler ABI info - done
>>> -- Detecting CXX compile features
>>> -- Detecting CXX compile features - done
>>> CMake Warning at superbuild/cmake/SuperbuildUtils.cmake:242 (message):
>>>   Failed to determine if the common superbuild is an old checkout.  The
>>>   common superbuild may be out of date, but cannot be verified.: warning:
>>>   unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>> Permission
>>>   denied
>>>
>>>   warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>>   Permission denied
>>>
>>>   warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>>   Permission denied
>>>
>>>   warning: unable to access '/afs/pdc.kth.se/home/k/kriezh/.gitconfig':
>>>   Permission denied
>>>
>>>   error: unknown option `is-ancestor'
>>>
>>>   usage: git merge-base [-a|--all] <commit> <commit>...
>>>
>>>      or: git merge-base [-a|--all] --octopus <commit>...
>>>      or: git merge-base --independent <commit>...
>>>
>>>
>>>
>>>       -a, --all             output all common ancestors
>>>       --octopus             find ancestors for a single n-way merge
>>>       --independent         list revs not reachable from others
>>> Call Stack (most recent call first):
>>>   superbuild/CMakeLists.txt:28 (_superbuild_check_up_to_date)
>>>
>>>
>>> -- Check size of void*
>>> -- Check size of void* - done
>>> -- Found Git: /usr/bin/git (found version "1.7.12.4")
>>> -- Determined source version for paraview: 5.4.0
>>> CMake Error at superbuild/cmake/SuperbuildMacros.cmake:289 (message):
>>>   The build tree appears to be inside of the git repository located at
>>>   /cfs/klemming/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paravie
>>> w-superbuild.
>>>   This interferes with the way the superbuild applies patches to
>>> projects and
>>>   is not supported.  Please relocate the build tree to a directory which
>>> is
>>>   not under a git repository.
>>> Call Stack (most recent call first):
>>>   superbuild/projects/bzip2.cmake:7 (superbuild_apply_patch)
>>>   superbuild/cmake/SuperbuildMacros.cmake:477 (include)
>>>   superbuild/CMakeLists.txt:113 (_superbuild_discover_projects)
>>>
>>>
>>> -- Configuring incomplete, errors occurred!
>>> See also "/cfs/nobackup/k/kriezh/PARAVIEW_SUPER_BUILD/paraview-superb
>>> uild/CMakeFiles/CMakeOutput.log".
>>>
>>>
>>> Kind regards,
>>> Mathi
>>>
>>>
>>>
>>>
>>>
>>> On 30 June 2017 at 04:13, Cory Quammen <cory.quammen at kitware.com> wrote:
>>>
>>>> On Wed, Jun 28, 2017 at 1:14 PM, Ezhilmathi Krishnasamy
>>>> <ezhkr601 at student.liu.se> wrote:
>>>> > Hi,
>>>> >
>>>> > Can anyone please give me some instructions how to Paraview Superbuid
>>>> > to install and use them with out using the GUI (using the python
>>>> script to
>>>> > render the images on the cluster or super computer).
>>>> >
>>>> > I see there are some instructions in here:
>>>> > https://gitlab.kitware.com/paraview/paraview-superbuild/
>>>> >
>>>> > But I could not find any build instructions.
>>>>
>>>> Take a look again, that page includes the README.md file contents
>>>> which includes build instructions.
>>>>
>>>> To build without the GUI, you should just need to set the options
>>>> ENABLE_qt4 and ENABLE_qt5 to OFF. To build with Python, set
>>>> ENABLE_python to ON.
>>>>
>>>> Best regards,
>>>> Cory
>>>>
>>>> >
>>>> > Kind regards,
>>>> > Mathi
>>>> >
>>>> > _______________________________________________
>>>> > Powered by www.kitware.com
>>>> >
>>>> > Visit other Kitware open-source projects at
>>>> > http://www.kitware.com/opensource/opensource.html
>>>> >
>>>> > Please keep messages on-topic and check the ParaView Wiki at:
>>>> > http://paraview.org/Wiki/ParaView
>>>> >
>>>> > Search the list archives at: http://markmail.org/search/?q=ParaView
>>>> >
>>>> > Follow this link to subscribe/unsubscribe:
>>>> > http://public.kitware.com/mailman/listinfo/paraview
>>>> >
>>>>
>>>>
>>>>
>>>> --
>>>> Cory Quammen
>>>> Staff R&D Engineer
>>>> Kitware, Inc.
>>>>
>>>
>>>
>>
>>
>> _______________________________________________
>> Powered by www.kitware.com
>>
>> Visit other Kitware open-source projects at http://www.kitware.com/opensource/opensource.html
>>
>> Please keep messages on-topic and check the ParaView Wiki at: http://paraview.org/Wiki/ParaView
>>
>> Search the list archives at: http://markmail.org/search/?q=ParaView
>>
>> Follow this link to subscribe/unsubscribe:http://public.kitware.com/mailman/listinfo/paraview
>>
>>
>>
>
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