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-DBUILD_PARALLEL=ON fails on mac (at least) #667

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doutriaux1 opened this issue Sep 17, 2014 · 44 comments
Closed

-DBUILD_PARALLEL=ON fails on mac (at least) #667

doutriaux1 opened this issue Sep 17, 2014 · 44 comments
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@doutriaux1
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@doutriaux1 doutriaux1 commented Sep 17, 2014

maybe as simple as a tweak to setup_runtime.[c]sh

[dash:~/ACME-data] mccoy20% /Users/mccoy20/uvcdat-app/14-09-16/bin/python gen_pngs.py

Traceback (most recent call last):

  File "gen_pngs.py", line 1, in <module>

    import vcs, cdms2, os, sys

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/__init__.py", line 31, in <module>

    from utils import *

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/utils.py", line 6, in <module>

    import boxfill

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/boxfill.py", line 30, in <module>

    import Canvas

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/Canvas.py", line 35, in <module>

    from queries import *

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/queries.py", line 31, in <module>

    import texttable, textorientation, textcombined, template, dv3d

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/vcs/dv3d.py", line 15, in <module>

    from DV3D.ConfigurationFunctions import ConfigManager

  File "/Users/mccoy20/uvcdat-app/14-09-16/Library/Frameworks/Python.framework/Versions/2.7/lib/python2.7/site-packages/DV3D/ConfigurationFunctions.py", line 6, in <module>

    import sys, vtk, cdms2, traceback, os, cdtime, cPickle, copy 

  File "/Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/paraview-4.1/site-packages/vtk/__init__.py", line 85, in <module>

    from vtkIONetCDF import *

  File "/Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/paraview-4.1/site-packages/vtk/vtkIONetCDF.py", line 1, in <module>

    from vtkIONetCDFPython import *

ImportError: dlopen(/Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/paraview-4.1/site-packages/vtk/vtkIONetCDFPython.so, 2): Symbol not found: __ZNSt8ios_base4InitD1Ev

  Referenced from: /Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/libnetcdf_c++.4.dylib

  Expected in: flat namespace

 in /Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/libnetcdf_c++.4.dylib
@doutriaux1 doutriaux1 added this to the 2.0.0 milestone Sep 17, 2014
@aashish24 aashish24 added this to the 2.1 milestone Sep 25, 2014
@aashish24 aashish24 removed this from the 2.0.0 milestone Sep 25, 2014
@aashish24 aashish24 assigned allisonvacanti and unassigned aashish24 Oct 2, 2014
@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 3, 2014

I don't see gen_pngs.py in the repo and none of the tests fail in this way. Do you have a script that can reproduce this?

@aashish24
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@aashish24 aashish24 commented Oct 3, 2014

@dlonie If you can source the runtime script and run regular tests, then probably look into the setup_runtime.sh and see if there is something missing for Mac.

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 3, 2014

The only OS-specific bit in there is:

if [ `uname` = 'Darwin' ] ; then
  export DYLD_FALLBACK_LIBRARY_PATH="${LD_LIBRARY_PATH}"
fi

which shouldn't be causing this sort of problem. I'll need someway to reproduce this to figure out what's going on.

@aashish24
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@aashish24 aashish24 commented Oct 3, 2014

If that's the case, I think the issue is this then:

ImportError: dlopen(/Users/mccoy20/uvcdat-app/14-09-16/Externals/lib/paraview-4.1/site-packages/vtk/vtkIONetCDFPython.so, 2): Symbol not found: __ZNSt8ios_base4InitD1Ev

Were you able to run tests with the paraview build? Can you post results on the cdash?

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 3, 2014

@aashish24
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@aashish24 aashish24 commented Oct 3, 2014

Looking good. I think the other tests are failing because the ParaView does not has your change to CellToPointData fix. Is that merged into the master yet?

Thanks

@aashish24
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@aashish24 aashish24 commented Oct 3, 2014

@doutriaux1 Can you reproduce this bug anymore?

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 3, 2014

was it an issue on the vtk/paraview repos? should I try from master again?

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 3, 2014

I can't reproduce it, so I'm not sure what's going on -- the test script used in the report isn't in the repository. Is there another way to trigger this using a vcs script?

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 3, 2014

@dlonie I think the real issue is that -DCDAT_BUILD_PARALLEL=ON breaks the build, try to build with this option, source setup_runtime and import vcs and plot something, it should fail

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 3, 2014

I set that on, rebuilt in a clean directory, and ran the tests. I didn't see this error (some image tests failed, but it looks like it's because the vtk/uvcdat-master and paraview have diverged.)

This is on linux, though...I don't have a mac, so if it's mac-specific I'll have to find one to test on. Maybe @aashish24 has a mac I can use....?

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 3, 2014

we experienced it on both mac and linux, let me test again on both.

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

@doutriaux1 @dlonie ran the entire test suite you can find it here: http://open.cdash.org/viewTest.php?onlyfailed&buildid=3514542

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

I am unable to produce it on my Mac and Linux as of last week.

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 6, 2014

just failed on my ubuntu

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

@doutriaux1 we are unable to reproduce this. The dashborad (salix) seems to be fine. http://open.cdash.org/buildSummary.php?buildid=3517849

How we can reproduce this?

Can you setup a dashboard on this machine? or Submit ctest -D Experimental

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 6, 2014

cmake /path/to/repo -DCDAT_BUILD_PARALLEL=ON
cmake /path/to/repo -DCDAT_BUILD_PARALLEL=ON
make -jN

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

That's not reproducing on mine, David's and most importanly on Salix dashboard (all Linux)

Can you submit resutls

ctest -D Experimental

Or setup a dashboard on this machine please

@doutriaux1
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@doutriaux1 doutriaux1 commented Oct 6, 2014

-DCDAT_BUILD_MODE=ALL

seems to work, it only the CDAT_BUILD_PARALLEL=ON alone. that seems to fail

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

That's what @dlonie tried. @dlonie can you confirm? I can run just with that too.

But I think it will be most beneficial, if you can post your resutls. Without that it will be hard to see what's going on.

ctest -D Experimental

Also, please upload or your CMakeCache.txt

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 6, 2014

Trying now...

@allisonvacanti
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@allisonvacanti allisonvacanti commented Oct 6, 2014

Built and ran tests on Arch Linux.

Some dashboard, but about usual for me: http://open.cdash.org/viewTest.php?onlyfailed&buildid=3518414

Most are ESMF linking problems that have always been there on my system, the rest seem to be rendering issues since VTK/ParaView have diverged for the uvcdat branches.

@aashish24
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@aashish24 aashish24 commented Oct 6, 2014

Yup that is expected unless we update ParaView (which we don't today)

@doutriaux1 doutriaux1 removed this from the 2.1 milestone Feb 2, 2015
@doutriaux1 doutriaux1 added this to the 2.2 milestone Feb 2, 2015
@doutriaux1 doutriaux1 added this to the 2.2 milestone Feb 2, 2015
@doutriaux1 doutriaux1 removed this from the 2.1 milestone Feb 2, 2015
@aashish24
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@aashish24 aashish24 commented Feb 5, 2015

@doutriaux1 is this still an issue?

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 5, 2015

I believe so. But let me try it again this morning.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 5, 2015

nope still here on my mac 10.8
Something in ParaView. So BUILD_PARALLEL=ON triggers ParaView, is that really what we want by the way?

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 5, 2015

here's what I get:


  Linking C static library ../../../lib/libvtkWrappingTools-pv4.1.a

  [ 0%] Building CXX object
  VTK/ThirdParty/alglib/CMakeFiles/vtkalglib.dir/qr.cpp.o

  [ 0%] Building CXX object
  VTK/Utilities/KWSys/vtksys/CMakeFiles/vtksys.dir/RegularExpression.cxx.o

  [ 0%] Building C object
  VTK/ThirdParty/tiff/vtktiff/CMakeFiles/vtkmkg3states.dir/mkg3states.c.o

  [ 0%] Building C object VTK/ThirdParty/jpeg/vtkjpeg/CMakeFiles

  -------------------------------------------------

   From /Users/doutriaux1/build/ParaView-prefix/src/ParaView-stamp/ParaView-build-err.log

  -------------------------------------------------


  /Users/doutriaux1/build/build/ParaView/ThirdParty/IceT/vtkicet/src/strategies/radixk.c:24:10:
  fatal error: 'mpi.h' file not found

  #include <mpi.h>

           ^

  1 error generated.

  make[5]: ***
  [ThirdParty/IceT/vtkicet/src/ice-t/CMakeFiles/IceTCore.dir/__/strategies/radixk.c.o]
  Error 1

  make[4]: ***
  [ThirdParty/IceT/vtkicet/src/ice-t/CMakeFiles/IceTCore.dir/all] Error 2

  make[4]: *** Waiting for unfinished jobs....

  make[3]: *** [all] Error 2

  -------------------------------------------------



make[2]: *** [ParaView-prefix/src/ParaView-stamp/ParaView-build] Error 1
make[1]: *** [CMakeFiles/ParaView.dir/all] Error 2
make: *** [all] Error 2

@jbeezley
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@jbeezley jbeezley commented Feb 5, 2015

Also mentioned here: #789. For one, I would recommend trying with make -j1.

It looks to me like IceT is using MPI_C_INCLUDE_PATH like everything else to find the header. I'll try an MPI build to see if I run into the same issue.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 5, 2015

ok will try the make -j1, but if that works then we need to figure out which dependencies are wrong.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 5, 2015

make -j1 output

[ 41%] Built target g2clib
Scanning dependencies of target MPI
[ 42%] Creating directories for 'MPI'
[ 42%] Performing download step (download, verify and extract) for 'MPI'
-- downloading...
     src='http://uv-cdat.llnl.gov/cdat/resources/openmpi-1.6.4.tar.gz'
     dst='/Users/doutriaux1/build/openmpi-1.6.4.tar.gz'
     timeout='none'
attempt 1
-- [download 0% complete]
-- [download 100% complete]
-- downloading... done
-- verifying file...
     file='/Users/doutriaux1/build/openmpi-1.6.4.tar.gz'
-- verifying file... done
-- extracting...
     src='/Users/doutriaux1/build/openmpi-1.6.4.tar.gz'
     dst='/Users/doutriaux1/build/build/MPI'
-- extracting... [tar xfz]
-- extracting... [analysis]
-- extracting... [rename]
-- extracting... [clean up]
-- extracting... done
[ 43%] No patch step for 'MPI'
[ 43%] No update step for 'MPI'
[ 43%] Performing configure step for 'MPI'
-- MPI configure command succeeded.  See also /Users/doutriaux1/build/MPI-prefix/src/MPI-stamp/MPI-configure-*.log

[ 43%] Performing build step for 'MPI'
-- MPI build command succeeded.  See also /Users/doutriaux1/build/MPI-prefix/src/MPI-stamp/MPI-build-*.log

[ 43%] Performing install step for 'MPI'
-- MPI install command succeeded.  See also /Users/doutriaux1/build/MPI-prefix/src/MPI-stamp/MPI-install-*.log

[ 43%] Completed 'MPI'
[ 43%] Built target MPI
Scanning dependencies of target ESMF
[ 43%] Creating directories for 'ESMF'
[ 44%] Performing download step (download, verify and extract) for 'ESMF'
-- downloading...
     src='http://uv-cdat.llnl.gov/cdat/resources/esmp.ESMF_6_3_0rp1_ESMP_01.tar.bz2'
     dst='/Users/doutriaux1/build/esmp.ESMF_6_3_0rp1_ESMP_01.tar.bz2'
     timeout='none'
attempt 1
-- [download 0% complete]
-- [download 100% complete]
-- downloading... done
-- verifying file...
     file='/Users/doutriaux1/build/esmp.ESMF_6_3_0rp1_ESMP_01.tar.bz2'
-- verifying file... done
-- extracting...
     src='/Users/doutriaux1/build/esmp.ESMF_6_3_0rp1_ESMP_01.tar.bz2'
     dst='/Users/doutriaux1/build/build/ESMF'
-- extracting... [tar xfz]
-- extracting... [analysis]
-- extracting... [rename]
-- extracting... [clean up]
-- extracting... done
[ 44%] Performing patch step for 'ESMF'
patching file ESMP_LoadESMF.py
[ 44%] No update step for 'ESMF'
[ 45%] No configure step for 'ESMF'
[ 45%] Performing build step for 'ESMF'
CMake Error at /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build.cmake:56 (message):
  CTEST_FULL_OUTPUT

   Command failed: 1
   '/Applications/CMake.app/Contents/bin/cmake' '-P' '/Users/doutriaux1/build/CMake/ESMF_make_step.cmake'
   From /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build-out.log

  -------------------------------------------------

  -------------------------------------------------

   From /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build-err.log

  -------------------------------------------------

  CMake Warning (dev) in /Users/doutriaux1/build/CMake/ESMF_make_step.cmake:

    Syntax Warning in cmake code at



      /Users/doutriaux1/build/CMake/ESMF_make_step.cmake:31:28



    Argument not separated from preceding token by whitespace.

  This warning is for project developers.  Use -Wno-dev to suppress it.



  Make Errors detected:



  --------------------------------------------------------------

  Make version:

  GNU Make 3.81

  Copyright (C) 2006 Free Software Foundation, Inc.

  This is free software; see the source for copying conditions.

  There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A

  PARTICULAR PURPOSE.



  This program built for i386-apple-darwin11.3.0



  --------------------------------------------------------------

  Fortran Compiler version:



  --------------------------------------------------------------

  C++ Compiler version:



  --------------------------------------------------------------

  Preprocessor version:

  Apple LLVM version 5.1 (clang-503.0.40) (based on LLVM 3.4svn)

  Target: x86_64-apple-darwin12.5.0

  Thread model: posix



  --------------------------------------------------------------

  ESMF_VERSION_STRING: 6.3.0rp1

  --------------------------------------------------------------



  --------------------------------------------------------------

   * User set ESMF environment variables *

  ESMF_OS=Darwin

  ESMF_OPENMP=OFF

  ESMF_PTHREADS=OFF

  ESMF_DIR=/Users/doutriaux1/build/build/ESMF/esmf

  ESMF_ARRAYLITE=TRUE

  ESMF_COMM=openmpi

  ESMF_INSTALL_PREFIX=/Users/doutriaux1/build/install/Externals

  ESMF_MOAB=OFF

  ESMF_ABI=64

  ESMF_COMPILER=gfortran



  --------------------------------------------------------------

   * ESMF environment variables *

  ESMF_DIR: /Users/doutriaux1/build/build/ESMF/esmf

  ESMF_OS: Darwin

  ESMF_MACHINE: x86_64

  ESMF_ABI: 64

  ESMF_COMPILER: gfortran

  ESMF_BOPT: O

  ESMF_COMM: openmpi

  ESMF_SITE: default

  ESMF_PTHREADS: OFF

  ESMF_OPENMP: OFF

  ESMF_OPENACC: OFF

  ESMF_ARRAY_LITE: FALSE

  ESMF_NO_INTEGER_1_BYTE: TRUE

  ESMF_NO_INTEGER_2_BYTE: TRUE

  ESMF_FORTRANSYMBOLS: default

  ESMF_DEFER_LIB_BUILD: ON

  ESMF_SHARED_LIB_BUILD: ON

  ESMF_TESTEXHAUSTIVE: OFF

  ESMF_TESTWITHTHREADS: OFF

  ESMF_TESTMPMD: OFF

  ESMF_TESTSHAREDOBJ: OFF

  ESMF_TESTFORCEOPENMP: OFF

  ESMF_TESTFORCEOPENACC: OFF

  ESMF_TESTHARNESS_ARRAY: default

  ESMF_TESTHARNESS_FIELD: default

  ESMF_MPIRUN: mpirun



  --------------------------------------------------------------

   * ESMF environment variables pointing to 3rd party software *

  ESMF_MOAB: OFF

  ESMF_LAPACK: internal



  --------------------------------------------------------------

   * ESMF environment variables for final installation *

  ESMF_INSTALL_PREFIX: /Users/doutriaux1/build/install/Externals

  ESMF_INSTALL_HEADERDIR: include

  ESMF_INSTALL_MODDIR: mod/modO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_LIBDIR: lib/libO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_BINDIR: bin/binO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_DOCDIR: doc



  --------------------------------------------------------------

   * Compilers, Linkers, Flags, and Libraries *

  Location of the preprocessor: /usr/bin/gcc

  Location of the Fortran compiler:
  /Users/doutriaux1/build/install/Externals/bin/mpif90

  Location of the Fortran linker:
  /Users/doutriaux1/build/install/Externals/bin/mpif90

  Location of the C++ compiler:
  /Users/doutriaux1/build/install/Externals/bin/mpicxx

  Location of the C++ linker:
  /Users/doutriaux1/build/install/Externals/bin/mpicxx



  Fortran compiler flags:

  ESMF_F90COMPILEOPTS: -O -m64 -mcmodel=small -ffree-line-length-none

  ESMF_F90COMPILEPATHS:
  -I/Users/doutriaux1/build/build/ESMF/esmf/mod/modO/Darwin.gfortran.64.openmpi.default
  -I/Users/doutriaux1/build/build/ESMF/esmf/src/include

  ESMF_F90COMPILECPPFLAGS: -DESMF_NO_INTEGER_1_BYTE -DESMF_NO_INTEGER_2_BYTE
  -DESMF_LAPACK=1 -DESMF_MPIIO -DESMF_NO_PTHREADS -DESMF_NO_OPENMP
  -DESMF_NO_OPENACC -DSx86_64_small=1 -DESMF_OS_Darwin=1

  ESMF_F90COMPILEFREECPP:

  ESMF_F90COMPILEFREENOCPP: -ffree-form

  ESMF_F90COMPILEFIXCPP: -cpp -ffixed-form

  ESMF_F90COMPILEFIXNOCPP:



  Fortran linker flags:

  ESMF_F90LINKOPTS: -m64 -mcmodel=small

  ESMF_F90LINKPATHS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L

  ESMF_F90LINKRPATHS:

  ESMF_F90LINKLIBS: -lmpi_cxx -lstdc++

  ESMF_F90ESMFLINKLIBS: -lesmf -lmpi_cxx -lstdc++



  C++ compiler flags:

  ESMF_CXXCOMPILEOPTS: -O -DNDEBUG -DESMF_LOWERCASE_SINGLEUNDERSCORE -m64
  -mcmodel=small

  ESMF_CXXCOMPILEPATHS: -I/Users/doutriaux1/build/build/ESMF/esmf/src/include


  ESMF_CXXCOMPILECPPFLAGS: -DESMF_NO_INTEGER_1_BYTE -DESMF_NO_INTEGER_2_BYTE
  -DESMF_LAPACK=1 -DESMF_MPIIO -DESMF_NO_PTHREADS -DESMF_NO_OPENMP
  -DESMF_NO_OPENACC -DSx86_64_small=1 -DESMF_OS_Darwin=1 -D__SDIR__=''
  -DESMF_NO_SIGUSR2



  C++ linker flags:

  ESMF_CXXLINKOPTS: -m64 -mcmodel=small

  ESMF_CXXLINKPATHS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L

  ESMF_CXXLINKRPATHS:

  ESMF_CXXLINKLIBS: -lmpi_f77 -lgfortran

  ESMF_CXXESMFLINKLIBS: -lesmf -lmpi_f77 -lgfortran



  Shared library build:

  ESMF_SL_LIBS_TO_MAKE: libesmf

  ESMF_SL_SUFFIX: dylib

  ESMF_SL_LIBLINKER: mpicxx

  ESMF_SL_LIBOPTS: -dynamiclib

  ESMF_SL_LIBLIBS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L -lmpi_cxx -lstdc++
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L -lmpi_f77 -lgfortran





  --------------------------------------------------------------

  Compiling on Thu Feb 5 12:13:25 PST 2015 on sofia.llnl.gov

  Machine characteristics: Darwin sofia.llnl.gov 12.5.0 Darwin Kernel Version
  12.5.0: Sun Sep 29 13:33:47 PDT 2013; root:xnu-2050.48.12~1/RELEASE_X86_64
  x86_64

  ==============================================================



  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  for library

  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/mod/modO/Darwin.gfortran.64.openmpi.default
  for *.mod files

  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/obj/objO/Darwin.gfortran.64.openmpi.default
  for *.o files

  Making directory /Users/doutriaux1/build/build/ESMF/esmf/src/include for
  include files

  Making directory /Users/doutriaux1/build/build/ESMF/esmf/src/etc for
  Attribute package files

  /Users/doutriaux1/build/build/ESMF/esmf/src

  tree_include tree_etc in: /Users/doutriaux1/build/build/ESMF/esmf/src

  /Users/doutriaux1/build/build/ESMF/esmf/src/prologue

  tree_include tree_etc in:
  /Users/doutriaux1/build/build/ESMF/esmf/src/prologue

  /Users/doutriaux1/build/build/ESMF/esmf/src/prologue/tests

  tree_include tree_etc in:
  /Users/doutriaux1/build/build/ESMF/esmf/src/prologue/tests

  /Users/doutriaux1/build/build/ESMF/esmf/src/test_harness

  tree_include tree_etc in:
  /Users/doutriaux1/build/build/ESMF/esmf/src/test_harness

  /Users/doutriaux1/build/build/ESMF/esmf/src/test_harness/src

  tree_include tree_etc in:
  /Users/doutriaux1/build/build/ESMF/esmf/src/test_harness/src

  /Users/doutriaux1/build/build/ESMF/esmf/src/Infrastructure

  tree_include tree_etc in:
  /Users/doutriaux1/build/build/ESMF/esmf/src/Infrastructure

  /Users/doutriaux1/build/build/ESMF/esmf/src/Infrastructure/stubs

  tree_include tree_etc in:
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  -------------------------------------------------



make[2]: *** [ESMF-prefix/src/ESMF-stamp/ESMF-build] Error 1
make[1]: *** [CMakeFiles/ESMF.dir/all] Error 2
make: *** [all] Error 2
doutriaux1@sofia:[~/build]:[9417]> 

@aashish24
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@aashish24 aashish24 commented Feb 5, 2015

Looks like ESMF is broken. Can you confirm? If that' the case, we need to ping ESMF folks.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 6, 2015

it's not ESMF because -CDAT_BUILD_MODE=ALL works and that turns on parallel. So it's definitely our build.

@aashish24
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@aashish24 aashish24 commented Feb 6, 2015

So basically in PARALLEL ON mode it seems like ParaView and ESMF both are failing.

@jbeezley
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@jbeezley jbeezley commented Feb 6, 2015

The following worked for me at commit b7aada3 OS X 10.10.2 with

cmake -DCDAT_PARALLEL_BUILD=ON -DCDAT_BUILD_JPEG=OFF -DCDAT_USE_SYSTEM_JPEG=ON -DCDAT_BUILD_PNG=OFF -DCDAT_USE_SYSTEM_PNG=ON

Running ctest now, but they appear to be passing.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 6, 2015

yes but only in parallel=on build_mode=all works. must be dependencies order or missing

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@doutriaux1 doutriaux1 commented Feb 6, 2015

@jbeezley i will try with these options

@aashish24
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@aashish24 aashish24 commented Feb 6, 2015

Charles, something is missing. The issue label says that we have problem when parallel=on fails to build. If the issue is something else, I would suggest we create a new issue, provide the exact command that you used and then can figure out what is wrong.

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 6, 2015

well that's the issue no? -DCDAT_BUILD_PARRALEL=ON fails. Feel free to create another issue and close this one.

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@aashish24 aashish24 commented Feb 6, 2015

Oh .. what you said confused me: "yes but only in parallel=on build_mode=all works. must be dependencies order or missing"

@doutriaux1
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@doutriaux1 doutriaux1 commented Feb 6, 2015

sorry, I forgot the "dot" between the two options. BUILD_MODE=ALL does work (and it triggers PARALLEL=ON) so I think it is a dependencies order or dependencies missing.

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@doutriaux1 doutriaux1 commented Feb 6, 2015

need to try on 10.9 too. Since it seems to work on 10.10 for @jbeezley

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@aashish24 aashish24 commented Feb 9, 2015

@doutriaux1 can you try please?

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@doutriaux1 doutriaux1 commented Feb 9, 2015

@aashish24 @jbeezley I get the exact same thing on 10.9

[ 77%] No update step for 'ESMF'
[ 78%] No configure step for 'ESMF'
[ 78%] Performing build step for 'ESMF'
-- PyQt configure command succeeded.  See also /Users/doutriaux1/build/PyQt-prefix/src/PyQt-stamp/PyQt-configure-*.log

[ 79%] Performing build step for 'PyQt'
remote: Total 328115 (delta 242890), reused 328115 (delta 242890)
Receiving objects: 100% (328115/328115), 120.18 MiB | 2.73 MiB/s, done.
Resolving deltas: 100% (242890/242890), done.
Checking connectivity... done.
Checking out files: 100% (6436/6436), done.
/Users/doutriaux1/build/build/ParaView
CMake Error at /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build.cmake:56 (message):
  CTEST_FULL_OUTPUT

   Command failed: 1
   '/Applications/CMake 2.8-12.app/Contents/bin/cmake' '-P' '/Users/doutriaux1/build/CMake/ESMF_make_step.cmake'
   From /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build-out.log

  -------------------------------------------------

  -------------------------------------------------

   From /Users/doutriaux1/build/ESMF-prefix/src/ESMF-stamp/ESMF-build-err.log

  -------------------------------------------------

  CMake Warning (dev) in /Users/doutriaux1/build/CMake/ESMF_make_step.cmake:

    Syntax Warning in cmake code at



      /Users/doutriaux1/build/CMake/ESMF_make_step.cmake:31:28



    Argument not separated from preceding token by whitespace.

  This warning is for project developers.  Use -Wno-dev to suppress it.



  Make Errors detected:



  --------------------------------------------------------------

  Make version:

  GNU Make 3.81

  Copyright (C) 2006 Free Software Foundation, Inc.

  This is free software; see the source for copying conditions.

  There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A

  PARTICULAR PURPOSE.



  This program built for i386-apple-darwin11.3.0



  --------------------------------------------------------------

  Fortran Compiler version:



  --------------------------------------------------------------

  C++ Compiler version:



  --------------------------------------------------------------

  Preprocessor version:

  Apple LLVM version 5.1 (clang-503.0.40) (based on LLVM 3.4svn)

  Target: x86_64-apple-darwin13.4.0

  Thread model: posix



  --------------------------------------------------------------

  ESMF_VERSION_STRING: 6.3.0rp1

  --------------------------------------------------------------



  --------------------------------------------------------------

   * User set ESMF environment variables *

  ESMF_OS=Darwin

  ESMF_OPENMP=OFF

  ESMF_PTHREADS=OFF

  ESMF_DIR=/Users/doutriaux1/build/build/ESMF/esmf

  ESMF_ARRAYLITE=TRUE

  ESMF_COMM=openmpi

  ESMF_INSTALL_PREFIX=/Users/doutriaux1/build/install/Externals

  ESMF_MOAB=OFF

  ESMF_ABI=64

  ESMF_COMPILER=gfortran



  --------------------------------------------------------------

   * ESMF environment variables *

  ESMF_DIR: /Users/doutriaux1/build/build/ESMF/esmf

  ESMF_OS: Darwin

  ESMF_MACHINE: x86_64

  ESMF_ABI: 64

  ESMF_COMPILER: gfortran

  ESMF_BOPT: O

  ESMF_COMM: openmpi

  ESMF_SITE: default

  ESMF_PTHREADS: OFF

  ESMF_OPENMP: OFF

  ESMF_OPENACC: OFF

  ESMF_ARRAY_LITE: FALSE

  ESMF_NO_INTEGER_1_BYTE: TRUE

  ESMF_NO_INTEGER_2_BYTE: TRUE

  ESMF_FORTRANSYMBOLS: default

  ESMF_DEFER_LIB_BUILD: ON

  ESMF_SHARED_LIB_BUILD: ON

  ESMF_TESTEXHAUSTIVE: OFF

  ESMF_TESTWITHTHREADS: OFF

  ESMF_TESTMPMD: OFF

  ESMF_TESTSHAREDOBJ: OFF

  ESMF_TESTFORCEOPENMP: OFF

  ESMF_TESTFORCEOPENACC: OFF

  ESMF_TESTHARNESS_ARRAY: default

  ESMF_TESTHARNESS_FIELD: default

  ESMF_MPIRUN: mpirun



  --------------------------------------------------------------

   * ESMF environment variables pointing to 3rd party software *

  ESMF_MOAB: OFF

  ESMF_LAPACK: internal



  --------------------------------------------------------------

   * ESMF environment variables for final installation *

  ESMF_INSTALL_PREFIX: /Users/doutriaux1/build/install/Externals

  ESMF_INSTALL_HEADERDIR: include

  ESMF_INSTALL_MODDIR: mod/modO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_LIBDIR: lib/libO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_BINDIR: bin/binO/Darwin.gfortran.64.openmpi.default

  ESMF_INSTALL_DOCDIR: doc



  --------------------------------------------------------------

   * Compilers, Linkers, Flags, and Libraries *

  Location of the preprocessor: /usr/bin/gcc

  Location of the Fortran compiler:
  /Users/doutriaux1/build/install/Externals/bin/mpif90

  Location of the Fortran linker:
  /Users/doutriaux1/build/install/Externals/bin/mpif90

  Location of the C++ compiler:
  /Users/doutriaux1/build/install/Externals/bin/mpicxx

  Location of the C++ linker:
  /Users/doutriaux1/build/install/Externals/bin/mpicxx



  Fortran compiler flags:

  ESMF_F90COMPILEOPTS: -O -m64 -mcmodel=small -ffree-line-length-none

  ESMF_F90COMPILEPATHS:
  -I/Users/doutriaux1/build/build/ESMF/esmf/mod/modO/Darwin.gfortran.64.openmpi.default
  -I/Users/doutriaux1/build/build/ESMF/esmf/src/include

  ESMF_F90COMPILECPPFLAGS: -DESMF_NO_INTEGER_1_BYTE -DESMF_NO_INTEGER_2_BYTE
  -DESMF_LAPACK=1 -DESMF_MPIIO -DESMF_NO_PTHREADS -DESMF_NO_OPENMP
  -DESMF_NO_OPENACC -DSx86_64_small=1 -DESMF_OS_Darwin=1

  ESMF_F90COMPILEFREECPP:

  ESMF_F90COMPILEFREENOCPP: -ffree-form

  ESMF_F90COMPILEFIXCPP: -cpp -ffixed-form

  ESMF_F90COMPILEFIXNOCPP:



  Fortran linker flags:

  ESMF_F90LINKOPTS: -m64 -mcmodel=small

  ESMF_F90LINKPATHS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L

  ESMF_F90LINKRPATHS:

  ESMF_F90LINKLIBS: -lmpi_cxx -lstdc++

  ESMF_F90ESMFLINKLIBS: -lesmf -lmpi_cxx -lstdc++



  C++ compiler flags:

  ESMF_CXXCOMPILEOPTS: -O -DNDEBUG -DESMF_LOWERCASE_SINGLEUNDERSCORE -m64
  -mcmodel=small

  ESMF_CXXCOMPILEPATHS: -I/Users/doutriaux1/build/build/ESMF/esmf/src/include


  ESMF_CXXCOMPILECPPFLAGS: -DESMF_NO_INTEGER_1_BYTE -DESMF_NO_INTEGER_2_BYTE
  -DESMF_LAPACK=1 -DESMF_MPIIO -DESMF_NO_PTHREADS -DESMF_NO_OPENMP
  -DESMF_NO_OPENACC -DSx86_64_small=1 -DESMF_OS_Darwin=1 -D__SDIR__=''
  -DESMF_NO_SIGUSR2



  C++ linker flags:

  ESMF_CXXLINKOPTS: -m64 -mcmodel=small

  ESMF_CXXLINKPATHS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L

  ESMF_CXXLINKRPATHS:

  ESMF_CXXLINKLIBS: -lmpi_f77 -lgfortran

  ESMF_CXXESMFLINKLIBS: -lesmf -lmpi_f77 -lgfortran



  Shared library build:

  ESMF_SL_LIBS_TO_MAKE: libesmf

  ESMF_SL_SUFFIX: dylib

  ESMF_SL_LIBLINKER: mpicxx

  ESMF_SL_LIBOPTS: -dynamiclib

  ESMF_SL_LIBLIBS:
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L -lmpi_cxx -lstdc++
  -L/Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  -L -lmpi_f77 -lgfortran





  --------------------------------------------------------------

  Compiling on Mon Feb 9 14:33:17 PST 2015 on maryam

  Machine characteristics: Darwin maryam 13.4.0 Darwin Kernel Version 13.4.0:
  Sun Aug 17 19:50:11 PDT 2014; root:xnu-2422.115.4~1/RELEASE_X86_64 x86_64

  ==============================================================



  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/lib/libO/Darwin.gfortran.64.openmpi.default
  for library

  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/mod/modO/Darwin.gfortran.64.openmpi.default
  for *.mod files

  Making directory
  /Users/doutriaux1/build/build/ESMF/esmf/obj/objO/Darwin.gfortran.64.openmpi.default
  for *.o files

  Making directory /Users/doutriaux1/build/build/ESMF/esmf/src/include for
  include files

  Making directory /Users/doutriaux1/build/build/ESMF/esmf/src/etc for
  Attribute package files

  /Users/doutriaux1/build/build/ESMF/esmf/src

  tree_include tree_etc in: /Users/doutriaux1/build/build/ESMF/esmf/src

  /Users/doutriaux1/build/build/ESMF/esmf/src/prologue

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make[2]: *** [ESMF-prefix/src/ESMF-stamp/ESMF-build] Error 1
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Branch uvcdat-master set up to track remote branch uvcdat-master from origin.
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Submodule 'ThirdParty/IceT/vtkicet' (http://paraview.org/IceT.git) registered for path 'ThirdParty/IceT/vtkicet'
Submodule 'ThirdParty/QtTesting/vtkqttesting' (http://paraview.org/QtTesting.git) registered for path 'ThirdParty/QtTesting/vtkqttesting'
Submodule 'ThirdParty/protobuf/vtkprotobuf' (http://public.kitware.com/protobuf.git) registered for path 'ThirdParty/protobuf/vtkprotobuf'
Submodule 'Utilities/VisItBridge' (http://paraview.org/VisItBridge.git) registered for path 'Utilities/VisItBridge'
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   From /Users/doutriaux1/build/ParaView-prefix/src/ParaView-stamp/ParaView-build-err.log

  -------------------------------------------------


  /Users/doutriaux1/build/build/ParaView/ThirdParty/IceT/vtkicet/src/strategies/radixk.c:24:10:
  fatal error: 'mpi.h' file not found

  #include <mpi.h>

           ^

  1 error generated.

  make[5]: ***
  [ThirdParty/IceT/vtkicet/src/ice-t/CMakeFiles/IceTCore.dir/__/strategies/radixk.c.o]
  Error 1

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  [ThirdParty/IceT/vtkicet/src/ice-t/CMakeFiles/IceTCore.dir/all] Error 2

  make[4]: *** Waiting for unfinished jobs....

  make[3]: *** [all] Error 2

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make[2]: *** [ParaView-prefix/src/ParaView-stamp/ParaView-build] Error 1
make[1]: *** [CMakeFiles/ParaView.dir/all] Error 2

@doutriaux1 doutriaux1 added this to the 2.3 milestone Feb 20, 2015
@doutriaux1 doutriaux1 removed this from the 2.2 milestone Feb 20, 2015
@allisonvacanti
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@allisonvacanti allisonvacanti commented Jun 23, 2015

Closing, we don't have ParaView in the superbuild anymore.

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