[Paraview] ParaView superbuild matplotlib not finding numpy (UNCLASSIFIED)
Cory Quammen
cory.quammen at kitware.com
Wed Jun 4 08:49:50 EDT 2014
Thanks for testing, Simon. We'll get that patch in soon so you shouldn't
run into this problem anymore.
Cory
On Wed, Jun 4, 2014 at 8:17 AM, Su, Simon M CTR USARMY ARL (US) <
simon.m.su.ctr at mail.mil> wrote:
> Classification: UNCLASSIFIED
> Caveats: NONE
>
> Cory,
>
> I have tested a new build on both the cray machines and your wildcard fix
> worked.
>
> Thanks for your help.
> -simon
>
> -----Original Message-----
> From: Cory Quammen [mailto:cory.quammen at kitware.com]
> Sent: Tuesday, June 03, 2014 3:05 PM
> To: Su, Simon M CTR USARMY ARL (US)
> Cc: ParaView
> Subject: Re: [Paraview] ParaView superbuild matplotlib not finding numpy
> (UNCLASSIFIED)
>
> Simon,
>
> I have posted a potential fix to the gerrit review system:
> http://review.source.kitware.com/#/t/4259/
>
> Can you try this out on this system to make sure it works? It basically
> replaces the 64 I asked you to add after lib in matplotlib.build.cmake
> with a
> * wildcard.
>
> Thanks,
> Cory
>
>
> On Tue, Jun 3, 2014 at 9:59 AM, Su, Simon M CTR USARMY ARL (US)
> <simon.m.su.ctr at mail.mil> wrote:
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
> Cory,
>
>
> Yeap.... the build went pass the problem of matplotlib not finding
> numpy....
> I will start turning of other features in the superbuild and try
> to build
> them
>
> Thanks for your help.
>
> -simon
>
> -----Original Message-----
> From: Cory Quammen [mailto:cory.quammen at kitware.com]
>
> Sent: Tuesday, June 03, 2014 9:48 AM
> To: Su, Simon M CTR USARMY ARL (US)
> Cc: ParaView
> Subject: Re: [Paraview] ParaView superbuild matplotlib not finding
> numpy
> (UNCLASSIFIED)
>
> Simon,
>
> Hmm, that's odd that the find command didn't turn up anything. On
> what kind
> of
> system are you compiling?
>
> In any case, I think I see the problem. Can you modify the CMake
> source file
>
> ParaViewSuperbuild/Projects/matplotlib.build.cmake
>
> so that the line
>
> file(GLOB_RECURSE numpy-egg "${NUMPY_INSTALL_DIR}/lib/*.egg-info")
>
>
> is replaced with
>
> file(GLOB_RECURSE numpy-egg
> "${NUMPY_INSTALL_DIR}/lib64/*.egg-info")
>
>
> and build again?
>
> This will hopefully get you past the current build error. I'll
> investigate
> why
> python is being installed in install/lib64 instead of install/lib.
>
> Cory
>
>
> On Tue, Jun 3, 2014 at 9:33 AM, Su, Simon M CTR USARMY ARL (US)
> <simon.m.su.ctr at mail.mil> wrote:
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
> Cory,
>
> The find didn't find anything...
>
> ssu:01% pwd
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install
> ssu:01% find . -name *numpy*
> find: No match.
>
> But, the install directory has the following directories
>
> bin etc include lib lib64 share var
>
> and I believe numpy is in
>
> ssu:01% pwd
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install/lib64/python2.6/site-packages
> ssu:01% ll
> total 8
> drwx------ 18 ssu ssu 4096 May 30 11:41 numpy
> -rw------- 1 ssu ssu 1658 May 30 11:41
> numpy-1.6.2-py2.6.egg-info
>
> lib64 only has a single python2.6 directory.... and all
> others are
> located in
> lib directory.... is this going to be a problem?
>
> Thanks
> -simon
>
>
> -----Original Message-----
> From: Cory Quammen [mailto:cory.quammen at kitware.com]
>
> Sent: Tuesday, June 03, 2014 9:25 AM
> To: Su, Simon M CTR USARMY ARL (US)
> Cc: ParaView
> Subject: Re: [Paraview] ParaView superbuild matplotlib not
> finding
> numpy
> (UNCLASSIFIED)
>
> Simon,
>
> That looks like what I would expect.
>
> Next, could you navigate to
>
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install
>
>
>
> and send me the results of running
>
>
> find . -name *numpy*
>
>
> Thanks,
> Cory
>
>
> On Tue, Jun 3, 2014 at 9:15 AM, Su, Simon M CTR USARMY ARL
> (US)
> <simon.m.su.ctr at mail.mil> wrote:
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
> Hi Cory,
>
> When I do a make numpy, this is what I got the
> following.
> In the pv-matplotlib-build.cmake file
> attached, -DNUMPY_INSTALL_DIR
> is
> defined
> as
>
>
> -DNUMPY_INSTALL_DIR:PATH=/u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install;
>
> Thanks for your help
> -simon
>
> ================ make numpy
> =========================
>
> -- Enabling zlib since needed by:
> boost;ffmpeg;freetype;hdf5;png;silo
> -- Enabling boost as requested.
> -- Enabling ffmpeg as requested.
> -- Enabling freetype as requested.
> -- Enabling libxml2 as requested.
> -- Enabling fontconfig as requested.
> -- Enabling szip as requested.
> -- Enabling hdf5 as requested.
> -- Enabling python as requested.
> -- Enabling numpy as requested.
> -- Enabling png as requested.
> -- Enabling matplotlib as requested.
> -- Enabling mpi as requested.
> -- Enabling osmesa as requested.
> -- Enabling qhull as requested.
> -- Enabling silo as requested.
> -- Enabling visitbridge as requested.
> -- Enabling paraview as requested.
> -- PROJECTS_ENABLED
>
> zlib;boost;ffmpeg;freetype;libxml2;fontconfig;szip;hdf5;python;numpy;png;matplotlib;mpi;osmesa;qhull;silo;visitbridge;paraview
> -- Configuring done
> -- Generating done
> -- Build files have been written to:
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build
>
> [ 50%] Built target python
> [100%] Built target numpy
>
>
> =================================================================================
>
>
>
>
>
>
> -----Original Message-----
> From: Cory Quammen [mailto:
> cory.quammen at kitware.com]
> Sent: Tuesday, June 03, 2014 8:50 AM
> To: Su, Simon M CTR USARMY ARL (US)
> Cc: ParaView
> Subject: Re: [Paraview] ParaView superbuild
> matplotlib not
> finding
> numpy
> (UNCLASSIFIED)
>
>
> Hi Simon,
>
> You normally shouldn't have to point to the numpy
> directory,
> especially when
> you are opting to build numpy, as your options
> show. I wonder
> if your
> numpy
> built successfully.
>
> If you navigate to
>
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build
>
>
>
> and run 'make numpy', does it succeed?
>
>
> Also, what can you send me the file
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/pv-matplotlib-build.cmake?
> There should be an option -DNUMPY_INSTALL_DIR:PATH
> in the
> command
> variable.
>
>
> Thanks,
> Cory
>
>
>
>
> On Mon, Jun 2, 2014 at 5:05 PM, Su, Simon M CTR
> USARMY ARL
> (US)
> <simon.m.su.ctr at mail.mil> wrote:
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
> Hello,
>
> How do you specify to the superbuild
> process when
> building
> 'matplotlib',
> where
> numpy was built? I configured cmake
> using the
> following and
> the
> error
> message at the end of the email
>
> thanks
> -simon
>
> cmake \
>
> -DCMAKE_INSTALL_PREFIX:PATH=${HOME}/pv-test/${version}_osmesa
> \
> -DCMAKE_BUILD_TYPE=Release \
> -DParaView_FROM_GIT=ON \
> -DENABLE_boost=ON \
> -DENABLE_cgns=OFF \
> -DENABLE_ffmpeg=ON \
> -DENABLE_fontconfig=ON \
> -DENABLE_freetype=ON \
> -DENABLE_hdf5=ON \
> -DENABLE_libxml2=ON \
> -DENABLE_matplotlib=ON \
> -DENABLE_mesa=OFF \
> -DENABLE_mpi=ON \
> -DENABLE_numpy=ON \
> -DENABLE_osmesa=ON \
> -DENABLE_paraview=ON \
> -DENABLE_png=ON \
> -DENABLE_python=ON \
> -DENABLE_qhull=ON \
> -DENABLE_qt=OFF \
> -DENABLE_silo=ON \
> -DENABLE_szip=ON \
> -DENABLE_visitbridge=ON \
> -DUSE_SYSTEM_mpi=ON \
> -DUSE_SYSTEM_python=ON \
> -DUSE_SYSTEM_zlib=ON \
> ../ParaViewSuperbuild_${version}
>
>
> ===================== error message
>
> ================================================
> -- Enabling zlib since needed by:
> boost;ffmpeg;freetype;hdf5;png;silo
> -- Enabling boost as requested.
> -- Enabling ffmpeg as requested.
> -- Enabling freetype as requested.
> -- Enabling libxml2 as requested.
> -- Enabling fontconfig as requested.
> -- Enabling szip as requested.
> -- Enabling hdf5 as requested.
> -- Enabling python as requested.
> -- Enabling numpy as requested.
> -- Enabling png as requested.
> -- Enabling matplotlib as requested.
> -- Enabling mpi as requested.
> -- Enabling osmesa as requested.
> -- Enabling qhull as requested.
> -- Enabling silo as requested.
> -- Enabling visitbridge as requested.
> -- Enabling paraview as requested.
> -- PROJECTS_ENABLED
>
> zlib;boost;ffmpeg;freetype;libxml2;fontconfig;szip;hdf5;python;numpy;png;matplotlib;mpi;osmesa;qhull;silo;visitbridge;paraview
> -- Configuring done
> -- Generating done
> -- Build files have been written to:
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install/lib64/python2.6/site-packages
> [ 20%] [ 22%] [ 29%] [ 38%] [ 38%] [ 37%]
> [ 40%] [
> 40%] Built
> target
> zlib
> Built target szip
> Built target python
> Built target libxml2
> Built target visitbridge
> Built target osmesa
> Built target mpi
> Performing update step for 'qhull'
> [ 49%] [ 55%] Built target freetype
> [ 70%] [ 70%] [ 73%] [ 73%] Built target
> hdf5
> Built target numpy
> Built target png
> Built target boost
> Built target ffmpeg
> [ 78%] Built target fontconfig
> [ 81%] [ 84%] Built target silo
> Performing build step for 'matplotlib'
> LD_LIBRARY_PATH =
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/install/lib:/opt/cray/shared-root/1.0-1.0402.46893.3.17.gem/lib64:/opt/cray/nodehealth/5.1-1.0402.45895.3.76.gem/lib64:/opt/cray/csa/3.0.0-1_2.0402.45268.1.90.gem/lib64:/opt/cray/job/1.5.5-0.1_2.0402.45272.1.5.gem/lib64:/opt/gcc/mpc/0.8.1/lib:/opt/gcc/mpfr/2.4.2/lib:/opt/gcc/gmp/4.3.2/lib:/opt/gcc/4.8.2/snos/lib64:/opt/cray/shared-root/1.0-1.0402.46893.3.17.gem/lib64:/opt/cray/nodehealth/5.1-1.0402.45895.3.76.gem/lib64:/opt/cray/csa/3.0.0-1_2.0402.45268.1.90.gem/lib64:/opt/cray/job/1.5.5-0.1_2.0402.45272.1.5.gem/lib64:/opt/gcc/mpc/0.8.1/lib:/opt/gcc/mpfr/2.4.2/lib:/opt/gcc/gmp/4.3.2/lib:/opt/gcc/4.8.2/snos/lib64
> Already on 'master'
> Your branch is up-to-date with
> 'origin/master'.
> CMake Error at
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0/Projects/matplotlib.build.cmake:12
> (message):
> Failed to locate numpy-egg
>
>
> CMake Error at
>
> /u/ssu/build/paraview/Build_4.1.0_osmesa/ParaViewSuperbuild_4.1.0-build/pv-matplotlib-build.cmake:26
> (message):
> Failed!!!
>
>
> make[2]: ***
> [matplotlib/src/matplotlib-stamp/matplotlib-build] Error
> 1
> make[1]: ***
> [CMakeFiles/matplotlib.dir/all] Error 2
> make[1]: *** Waiting for unfinished
> jobs....
> [ 85%] Performing configure step for
> 'qhull'
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
>
>
>
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> Classification: UNCLASSIFIED
> Caveats: NONE
>
>
>
>
>
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
>
>
>
>
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
>
>
>
>
>
> Classification: UNCLASSIFIED
> Caveats: NONE
>
>
>
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