stuff that does not belong here

7de41374 · Orgis, Dr. Thomas · 2ffcae4d · 2ffcae4d · 2ffcae4d · 2ffcae4d
Commit 7de41374 authored 5 years ago by Orgis, Dr. Thomas
--- a/DP3.log
+++ b/DP3.log
-RRZ: re-using existing module setup (RRZ_SW_INIT present)
-module: unloaded env/system-gcc
-module: loaded env/2019Q4-cuda-gcc-openmpi
-Module for pkgsrc-devel 2019Q4 loaded.
-module: loaded pythonversion/3
-TODO: Ensure conistent use of one openblas variant (the one cblas and numpy use)
-CASAcore already installed.
-Python-CASAcore already installed.
-Dysco already installed.
-AOFlagger already installed.
-IDG already installed.
-Installing DP3...
-Using existing sources.
-- The C compiler identification is GNU 8.3.0
-- The CXX compiler identification is GNU 8.3.0
-- Check for working C compiler: /sw/compiler/gcc-8.3.0/bin/gcc
-- Check for working C compiler: /sw/compiler/gcc-8.3.0/bin/gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /sw/compiler/gcc-8.3.0/bin/g++
-- Check for working CXX compiler: /sw/compiler/gcc-8.3.0/bin/g++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- HDF5: Using hdf5 compiler wrapper to determine C configuration
-- HDF5: Using hdf5 compiler wrapper to determine CXX configuration
-- Found HDF5: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libhdf5_cpp.so;/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libhdf5.so;/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.5") found components:  C CXX 
-- Found CFITSIO: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libcfitsio.so  
-- Looking for sgemm_
-- Looking for sgemm_ - found
-- Found BLAS: BLAS_LIBRARIES-PLACEHOLDER-FOR-EMPTY-LIBRARIES  
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Failed
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Looking for cheev_
-- Looking for cheev_ - found
-- A library with LAPACK API found.
-- Found HDF5: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libhdf5_cpp.so;/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libhdf5.so;/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libsz.so;/usr/lib/x86_64-linux-gnu/libz.so;/usr/lib/x86_64-linux-gnu/libdl.so;/usr/lib/x86_64-linux-gnu/libm.so (found version "1.10.5")  
-- Found the following Casacore components: 
--   ms: /dev/shm/thor-lofar/casacore/lib/libcasa_ms.so
--   fits: /dev/shm/thor-lofar/casacore/lib/libcasa_fits.so
--   scimath: /dev/shm/thor-lofar/casacore/lib/libcasa_scimath.so
--   measures: /dev/shm/thor-lofar/casacore/lib/libcasa_measures.so
--   scimath_f: /dev/shm/thor-lofar/casacore/lib/libcasa_scimath_f.so
--   tables: /dev/shm/thor-lofar/casacore/lib/libcasa_tables.so
--   casa: /dev/shm/thor-lofar/casacore/lib/libcasa_casa.so
-CMake Warning (dev) at /dev/shm/thor-lofar/idg/share/idgapi/cmake/idgapi-config.cmake:16 (set):
-  implicitly converting 'LOCATION' to 'STRING' type.
-Call Stack (most recent call first):
-  CMakeLists.txt:33 (find_package)
-This warning is for project developers.  Use -Wno-dev to suppress it.
-- Image domain gridder API libraries found.
-- Found Python3: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/bin/python3.6 (found version "3.6.9") found components: Interpreter Development 
-- Found Boost: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include (found version "1.71.0") found components: date_time filesystem python36 program_options system unit_test_framework 
-- LOFAR beam library found.
-- Found LibXml2: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libxml2.so (found version "2.9.10") 
-- Found ZLIB: /usr/lib/x86_64-linux-gnu/libz.so (found version "1.2.8") 
-- Found PNG: /usr/lib/x86_64-linux-gnu/libpng.so (found version "1.6.37") 
-- Found PkgConfig: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/bin/pkg-config (found version "1.6.0") 
-- Checking for module 'gtkmm-3.0>=3.0.0'
--   Found gtkmm-3.0, version 3.24.1
-- Checking for module 'sigc++-2.0'
--   Found sigc++-2.0, version 2.10.2
-- Found Armadillo: /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libarmadillo.so (found version "9.400.3") 
-- Found PythonInterp: /sw/link/python3/bin/python (found version "3.6.9") 
-- Build directory for Python extensions:        /dev/shm/thor-lofar/DP3/build/lib/python3.6/site-packages
-- Installation directory for Python extensions: /dev/shm/thor-lofar/DP3/lib/python3.6/site-packages
-- Configuring done
-- Generating done
-CMake Warning:
-  Manually-specified variables were not used by the project:
-    CMAKE_Fortran_COMPILER
-    CMAKE_Fortran_FLAGS
-- Build files have been written to: /dev/shm/thor-lofar/DP3/build
-Scanning dependencies of target Blob
-[  1%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobAipsIO.cc.o
-Scanning dependencies of target IDGPredict
-[  2%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobHeader.cc.o
-[  3%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobIStream.cc.o
-[  3%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobArray.cc.o
-[  4%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobIBufStream.cc.o
-[  5%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobOStream.cc.o
-[  5%] Building CXX object CMakeFiles/Blob.dir/Blob/BlobOBufStream.cc.o
-Scanning dependencies of target AOFlaggerStep_OBJ
-[  6%] Building CXX object CMakeFiles/IDGPredict.dir/IDGPredict/FitsIOChecker.cc.o
-[  7%] Building CXX object CMakeFiles/IDGPredict.dir/IDGPredict/FitsReader.cc.o
-[  8%] Building CXX object CMakeFiles/AOFlaggerStep_OBJ.dir/AOFlaggerStep/Register.cc.o
-[  8%] Building CXX object CMakeFiles/AOFlaggerStep_OBJ.dir/AOFlaggerStep/AOFlaggerStep.cc.o
-[  8%] Building CXX object CMakeFiles/IDGPredict.dir/IDGPredict/FitsWriter.cc.o
-Scanning dependencies of target ParmDB
-[  9%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/Axis.cc.o
-[ 10%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/AxisMapping.cc.o
-[ 10%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/Grid.cc.o
-[ 11%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/Box.cc.o
-[ 12%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/Parm.cc.o
-[ 13%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmCache.cc.o
-[ 13%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmDBBlob.cc.o
-[ 14%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmDBLocker.cc.o
-[ 15%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmDBMeta.cc.o
-[ 16%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmDB.cc.o
-[ 17%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmDBCasa.cc.o
-[ 17%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmFacade.cc.o
-[ 18%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmFacadeLocal.cc.o
-[ 19%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmFacadeRep.cc.o
-[ 19%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmValue.cc.o
-[ 20%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/ParmSet.cc.o
-[ 22%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/SourceData.cc.o
-[ 22%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/PatchInfo.cc.o
-[ 23%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/SourceDB.cc.o
-[ 25%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/SourceDBCasa.cc.o
-[ 26%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/SourceInfo.cc.o
-[ 26%] Building CXX object CMakeFiles/ParmDB.dir/ParmDB/SourceDBBlob.cc.o
-Scanning dependencies of target Common
-[ 27%] Building CXX object CMakeFiles/Common.dir/Common/DataConvert.cc.o
-[ 27%] Building CXX object CMakeFiles/Common.dir/Common/BaselineSelect.cc.o
-[ 28%] Building CXX object CMakeFiles/Common.dir/Common/ClusterDesc.cc.o
-[ 28%] Building CXX object CMakeFiles/Common.dir/Common/ParameterSet.cc.o
-[ 30%] Building CXX object CMakeFiles/Common.dir/Common/ParameterRecord.cc.o
-[ 30%] Building CXX object CMakeFiles/Common.dir/Common/NodeDesc.cc.o
-[ 31%] Building CXX object CMakeFiles/Common.dir/Common/VdsPartDesc.cc.o
-[ 32%] Building CXX object CMakeFiles/Common.dir/Common/Timer.cc.o
-[ 32%] Building CXX object CMakeFiles/Common.dir/Common/StringUtil.cc.o
-[ 33%] Building CXX object CMakeFiles/Common.dir/Common/PrettyUnits.cc.o
-[ 36%] Building CXX object CMakeFiles/Common.dir/Common/VdsMaker.cc.o
-[ 36%] Building CXX object CMakeFiles/Common.dir/Common/VdsDesc.cc.o
-[ 36%] Building CXX object CMakeFiles/Common.dir/Common/ParameterValue.cc.o
-[ 37%] Building CXX object CMakeFiles/Common.dir/Common/TypeNames.cc.o
-[ 38%] Building CXX object CMakeFiles/Common.dir/Common/ParameterHandler.cc.o
-[ 36%] Building CXX object CMakeFiles/Common.dir/Common/ParameterSetImpl.cc.o
-Scanning dependencies of target _pythondppp
-[ 39%] Building CXX object PythonDPPP/CMakeFiles/_pythondppp.dir/PythonDPPP.cc.o
-Scanning dependencies of target DPPP_OBJ
-Scanning dependencies of target DDECal_OBJ
-[ 39%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPRun.cc.o
-[ 40%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPInput.cc.o
-[ 41%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPStep.cc.o
-[ 41%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPInfo.cc.o
-[ 42%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPBuffer.cc.o
-[ 43%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ProgressMeter.cc.o
-[ 44%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DPLogger.cc.o
-[ 44%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/UVWCalculator.cc.o
-[ 45%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/FlagCounter.cc.o
-[ 46%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/DDECal.cc.o
-[ 48%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/Register.cc.o
-[ 48%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/BaselineSelection.cc.o
-[ 48%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/MultiMSReader.cc.o
-[ 48%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/Stopwatch.cc.o
-[ 50%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ApplyCal.cc.o
-[ 51%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/SmoothnessConstraint.cc.o
-[ 53%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/MSWriter.cc.o
-[ 53%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/MultiDirSolver.cc.o
-[ 55%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/MSUpdater.cc.o
-[ 55%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/Constraint.cc.o
-[ 56%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Counter.cc.o
-[ 58%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/KLFitter.cc.o
-[ 59%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/MSReader.cc.o
-[ 59%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/RotationAndDiagonalConstraint.cc.o
-[ 60%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/RotationConstraint.cc.o
-[ 61%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/MedFlagger.cc.o
-[ 61%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/TECConstraint.cc.o
-[ 61%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Averager.cc.o
-[ 61%] Built target Blob
-[ 62%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/PreFlagger.cc.o
-[ 62%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/PiercePoint.cc.o
-[ 63%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/UVWFlagger.cc.o
-[ 63%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/StationAdder.cc.o
-[ 64%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ScaleData.cc.o
-[ 65%] Building CXX object CMakeFiles/DDECal_OBJ.dir/DDECal/ScreenConstraint.cc.o
-[ 66%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Filter.cc.o
-[ 67%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/PhaseShift.cc.o
-[ 67%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Demixer.cc.o
-[ 68%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Position.cc.o
-[ 69%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Stokes.cc.o
-[ 70%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/SourceDBUtil.cc.o
-[ 70%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Apply.cc.o
-[ 71%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/EstimateMixed.cc.o
-[ 72%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/EstimateNew.cc.o
-[ 72%] Built target IDGPredict
-[ 72%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Simulate.cc.o
-[ 73%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Simulator.cc.o
-[ 75%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/SubtractMixed.cc.o
-[ 75%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ModelComponent.cc.o
-[ 76%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/SubtractNew.cc.o
-[ 77%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/PointSource.cc.o
-[ 78%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/GaussianSource.cc.o
-[ 79%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Patch.cc.o
-[ 79%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ModelComponentVisitor.cc.o
-[ 80%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/GainCal.cc.o
-[ 81%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/GainCalAlgorithm.cc.o
-[ 82%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Predict.cc.o
-[ 82%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/OneApplyCal.cc.o
-[ 83%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/PhaseFitter.cc.o
-[ 84%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/H5Parm.cc.o
-[ 85%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/SolTab.cc.o
-[ 85%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DummyStep.cc.o
-[ 86%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/H5ParmPredict.cc.o
-[ 87%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/GridInterpolate.cc.o
-[ 88%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Upsample.cc.o
-[ 89%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Interpolate.cc.o
-[ 89%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/Split.cc.o
-[ 90%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/ApplyBeam.cc.o
-[ 91%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DemixerNew.cc.o
-[ 91%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DemixInfo.cc.o
-[ 92%] Building CXX object CMakeFiles/DPPP_OBJ.dir/DPPP/DemixWorker.cc.o
-[ 92%] Built target AOFlaggerStep_OBJ
-[ 92%] Built target ParmDB
-In file included from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/is_xxx.hpp:8,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/is_auto_ptr.hpp:9,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/copy_ctor_mutates_rhs.hpp:8,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/value_arg.hpp:7,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/object/forward.hpp:10,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/object/pointer_holder.hpp:16,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/to_python_indirect.hpp:10,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/converter/arg_to_python.hpp:10,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/call.hpp:15,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/object_core.hpp:14,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/args.hpp:22,
-                 from /sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python.hpp:11,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/PythonStep.h:37,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/DPStepBase.h:25,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/PythonDPPP.cc:22:
-/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/is_auto_ptr.hpp:17:40: warning: ‘template<class> class std::auto_ptr’ is deprecated [-Wdeprecated-declarations]
- BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1)
-                                        ^~~~~~~~
-/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/detail/is_xxx.hpp:20:4: note: in definition of macro ‘BOOST_DETAIL_IS_XXX_DEF’
-    qualified_name< BOOST_PP_ENUM_PARAMS_Z(1, nargs, T) >        \
-    ^~~~~~~~~~~~~~
-/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/boost/python/detail/is_auto_ptr.hpp:17:1: note: in expansion of macro ‘BOOST_PYTHON_IS_XXX_DEF’
- BOOST_PYTHON_IS_XXX_DEF(auto_ptr, std::auto_ptr, 1)
- ^~~~~~~~~~~~~~~~~~~~~~~
-In file included from /home/software/compiler/gcc-8.3.0/include/c++/8.3.0/memory:80,
-                 from /dev/shm/thor-lofar/casacore/include/casacore/casa/Utilities/CountedPtr.h:32,
-                 from /dev/shm/thor-lofar/casacore/include/casacore/casa/Arrays/ArrayBase.h:35,
-                 from /dev/shm/thor-lofar/casacore/include/casacore/casa/Arrays/Array.h:35,
-                 from /dev/shm/thor-lofar/casacore/include/casacore/casa/Arrays/Vector.h:33,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/../DPPP/DPBuffer.h:30,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/../DPPP/DPStep.h:30,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/../DPPP/DPInput.h:30,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/PythonStep.h:30,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/DPStepBase.h:25,
-                 from /dev/shm/thor-lofar/DP3/src/PythonDPPP/PythonDPPP.cc:22:
-/home/software/compiler/gcc-8.3.0/include/c++/8.3.0/bits/unique_ptr.h:53:28: note: declared here
-   template<typename> class auto_ptr;
-                            ^~~~~~~~
-[ 92%] Built target Common
-Scanning dependencies of target showsourcedb
-Scanning dependencies of target makesourcedb
-[ 93%] Building CXX object CMakeFiles/showsourcedb.dir/ParmDB/showsourcedb.cc.o
-[ 94%] Building CXX object CMakeFiles/makesourcedb.dir/ParmDB/makesourcedb.cc.o
-[ 94%] Linking CXX shared module ../lib/python3.6/site-packages/lofar/pythondppp/_pythondppp.so
-[ 94%] Built target _pythondppp
-[ 95%] Linking CXX executable showsourcedb
-[ 95%] Built target showsourcedb
-[ 95%] Linking CXX executable makesourcedb
-[ 95%] Built target DPPP_OBJ
-[ 95%] Built target makesourcedb
-[ 95%] Built target DDECal_OBJ
-Scanning dependencies of target dppp_testdyndppp
-[ 96%] Building CXX object CMakeFiles/dppp_testdyndppp.dir/TestDynDPPP/TestDynStep.cc.o
-Scanning dependencies of target DPPP
-[ 97%] Building CXX object DPPP/CMakeFiles/DPPP.dir/DPPP.cc.o
-[ 98%] Linking CXX shared library libdppp_testdyndppp.so
-[ 98%] Built target dppp_testdyndppp
-[100%] Linking CXX executable DPPP
-[100%] Built target DPPP
-[  1%] Built target AOFlaggerStep_OBJ
-[ 10%] Built target DDECal_OBJ
-[ 15%] Built target Blob
-[ 28%] Built target Common
-[ 45%] Built target ParmDB
-[ 46%] Built target makesourcedb
-[ 48%] Built target showsourcedb
-[ 92%] Built target DPPP_OBJ
-[ 94%] Built target dppp_testdyndppp
-[ 96%] Built target IDGPredict
-[ 98%] Built target DPPP
-[100%] Built target _pythondppp
-Install the project...
-- Install configuration: ""
-- Installing: /dev/shm/thor-lofar/DP3/bin/makesourcedb
-- Installing: /dev/shm/thor-lofar/DP3/bin/showsourcedb
-- Installing: /dev/shm/thor-lofar/DP3/bin/DPPP
-- Up-to-date: /dev/shm/thor-lofar/DP3/share/rfistrategies/LOFAR-LBA-default.rfis
-- Up-to-date: /dev/shm/thor-lofar/DP3/share/rfistrategies/LOFAR-HBA-default.rfis
-- Installing: /dev/shm/thor-lofar/DP3/lib/python3.6/site-packages/lofar/dppp/__init__.py
-- Installing: /dev/shm/thor-lofar/DP3/lib/python3.6/site-packages/lofar/pythondppp/_pythondppp.so
-- Installing: /dev/shm/thor-lofar/DP3/lib/python3.6/site-packages/lofar/pythondppp/__init__.py
-Installed DP3.
-WSClean already installed.
-Installing pyBDSF.
-Using existing sources.
-look at /home/rznv039/lofar-work/pyBDSF-env.sh
--- a/build.log
+++ b/build.log
-RRZ: re-using existing module setup (RRZ_SW_INIT present)
-module: unloaded env/2019Q4-cuda-gcc-openmpi
-Module for pkgsrc-devel 2019Q4 unloaded.
-module: loaded env/2019Q4-cuda-gcc-openmpi
-Module for pkgsrc-devel 2019Q4 loaded.
-module: loaded pythonversion/3
-TODO: Ensure conistent use of one openblas variant (the one cblas and numpy use)
-CASAcore already installed.
-Python-CASAcore already installed.
-Dysco already installed.
-AOFlagger already installed.
-IDG already installed.
-DP3 already installed.
-WSClean already installed.
-Installing pyBDSF.
-Using existing sources.
-running install
-running bdist_egg
-running egg_info
-running build_src
-build_src
-building extension "bdsf._pytesselate" sources
-f2py options: ['']
-  adding 'build/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf/fortranobject.c' to sources.
-  adding 'build/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf' to include_dirs.
-building extension "bdsf._cbdsm" sources
-building extension "bdsf.nat.natgridmodule" sources
-build_src: building npy-pkg config files
-writing bdsf.egg-info/PKG-INFO
-writing dependency_links to bdsf.egg-info/dependency_links.txt
-writing requirements to bdsf.egg-info/requires.txt
-writing top-level names to bdsf.egg-info/top_level.txt
-writing manifest file 'bdsf.egg-info/SOURCES.txt'
-installing library code to build/bdist.linux-x86_64/egg
-running install_lib
-running build_py
-running build_ext
-running mbuild
-Building libminpack
-Building libport3
-dg7qts.f:331:22:
-dg7qts.f:329:72:
-       DO 110 I = 2, P
-                                                                        2
-dg7qts.f:331:22:
-          T = W(J) - W(I)
-                      1
-Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2)
-dg7qts.f:368:22:
-dg7qts.f:366:72:
-       DO 160 I = 2, P
-                                                                        2
-dg7qts.f:368:22:
-          T = W(J) + W(I)
-                      1
-Warning: Array reference at (1) out of bounds (2 > 1) in loop beginning at (2)
-customize UnixCCompiler
-customize UnixCCompiler using BuildExt
-customize UnixCCompiler
-customize UnixCCompiler using BuildExt
-get_default_fcompiler: matching types: '['gnu95', 'intel', 'lahey', 'pg', 'absoft', 'nag', 'vast', 'compaq', 'intele', 'intelem', 'gnu', 'g95', 'pathf95', 'nagfor']'
-customize Gnu95FCompiler
-Found executable /home/software/compiler/gcc-8.3.0/bin/gfortran
-customize Gnu95FCompiler
-customize Gnu95FCompiler using BuildExt
-building 'bdsf._pytesselate' extension
-compiling C sources
-C compiler: /sw/compiler/gcc-8.3.0/bin/gcc -DNDEBUG -march=ivybridge -O2 -fno-math-errno -ftree-vectorize -march=ivybridge -O2 -fno-math-errno -ftree-vectorize -I/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/include -I/sw/compiler/gcc-8.3.0/include -I/sw/compiler/cuda-10.2.89/include -I/usr/include -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/ncurses -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/db4 -march=native -O3 -fno-math-errno -ftree-vectorize -fPIC
-compile options: '-Ibuild/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/python3.6/site-packages/numpy/core/include -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/python3.6 -c'
-compiling Fortran sources
-Fortran f77 compiler: /home/software/compiler/gcc-8.3.0/bin/gfortran -Wall -ffixed-form -fno-second-underscore -fPIC -O3
-Fortran f90 compiler: /home/software/compiler/gcc-8.3.0/bin/gfortran -Wall -fno-second-underscore -fPIC -O3
-Fortran fix compiler: /home/software/compiler/gcc-8.3.0/bin/gfortran -Wall -ffixed-form -fno-second-underscore -Wall -fno-second-underscore -fPIC -O3
-compile options: '-Ibuild/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/python3.6/site-packages/numpy/core/include -I/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/include/python3.6 -c'
-gfortran:f77: src/fortran/pytess_simple.f
-gfortran:f77: src/fortran/pytess_roundness.f
-src/fortran/pytess_roundness.f:30:24:
-          roundfacold(i)=roundfac(i)
-                        1
-Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) at (1) [-Wconversion]
-/home/software/compiler/gcc-8.3.0/bin/gfortran -Wall -shared  -Wall -shared  -shared -L/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -L/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib/openmpi -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib/openmpi -L/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib -L/sw/compiler/gcc-8.3.0/lib64 -Wl,-R/sw/compiler/gcc-8.3.0/lib64 -L/sw/compiler/gcc-8.3.0/lib -Wl,-R/sw/compiler/gcc-8.3.0/lib -L/sw/compiler/cuda-10.2.89/lib64 -Wl,-R/sw/compiler/cuda-10.2.89/lib64 -lgsl -lcblas -lopenblas_openmp -Wl,--as-needed build/temp.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf/_pytesselatemodule.o build/temp.linux-x86_64-3.6/build/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf/fortranobject.o build/temp.linux-x86_64-3.6/src/fortran/pytess_simple.o build/temp.linux-x86_64-3.6/src/fortran/pytess_roundness.o -L/sw/compiler/gcc-8.3.0/lib64/../lib64 -L/sw/compiler/gcc-8.3.0/lib64/../lib64 -L/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -lpython3.6 -lgfortran -o build/lib.linux-x86_64-3.6/bdsf/_pytesselate.so
-gfortran: error: : No such file or directory
-gfortran: error: : No such file or directory
-error: Command "/home/software/compiler/gcc-8.3.0/bin/gfortran -Wall -shared  -Wall -shared  -shared -L/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -L/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib/openmpi -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib/openmpi -L/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib -Wl,-R/sw/env/cuda-10.2.89_gcc-8.3.0/openmpi/4.0.2/lib -L/sw/compiler/gcc-8.3.0/lib64 -Wl,-R/sw/compiler/gcc-8.3.0/lib64 -L/sw/compiler/gcc-8.3.0/lib -Wl,-R/sw/compiler/gcc-8.3.0/lib -L/sw/compiler/cuda-10.2.89/lib64 -Wl,-R/sw/compiler/cuda-10.2.89/lib64 -lgsl -lcblas -lopenblas_openmp -Wl,--as-needed build/temp.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf/_pytesselatemodule.o build/temp.linux-x86_64-3.6/build/src.linux-x86_64-3.6/build/src.linux-x86_64-3.6/bdsf/fortranobject.o build/temp.linux-x86_64-3.6/src/fortran/pytess_simple.o build/temp.linux-x86_64-3.6/src/fortran/pytess_roundness.o -L/sw/compiler/gcc-8.3.0/lib64/../lib64 -L/sw/compiler/gcc-8.3.0/lib64/../lib64 -L/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib -lpython3.6 -lgfortran -o build/lib.linux-x86_64-3.6/bdsf/_pytesselate.so" failed with exit status 1
--- a/download
+++ b/download
--- a/test.bin
+++ b/test.bin
--- a/test.c
+++ b/test.c
-int main(){ return 0; }
--- a/test.f90
+++ b/test.f90
-program hello
-write(*,*) 'hello'
-end program
--- a/test.log
+++ b/test.log
--- a/test.log2
+++ b/test.log2
--- a/test.sh
+++ b/test.sh
-. /sw/profile/init.sh
-module switch env env/2019Q4-cuda-gcc-openmpi
-export INSTALL_PREFIX=/dev/shm/thor-lofar1
-export CMAKE="$(which cmake)"
-export CC="$(which gcc)"
-export CXX="$(which g++)"
-export FC="$(which gfortran)"
-export CFLAGS="-march=native -O3 -fno-math-errno -ftree-vectorize"
-export FCFLAGS="$CFLAGS"
-export CXXFLAGS="-D_GLIB_USE_CXX_ABI=1 -DBOOST_NO_CXX11_SCOPED_ENUMS -march=native -O3 -fno-math-errno -ftree-vectorize"
-# ThOr: Those should not be global, should they? Let's add -Wl,--as-needed,
-# so that unnecessary libraries are dropped from the build.
-export LDFLAGS="-lgsl -lcblas -Wl,--as-needed"
-#export CMAKE_RPATH="-DCMAKE_BUILD_RPATH=$LD_RUN_PATH -DCMAKE_INSTALL_RPATH=$LD_RUN_PATH"
-#export CMAKE_RPATH="-DCMAKE_LIBRARY_PATH=$LD_RUN_PATH"
-LD_RUN_PATH=$INSTALL_PREFIX/casacore/lib:$LD_RUN_PATH
-CMAKE_RPATH="-DCMAKE_SKIP_RPATH=ON"
-run_cmake()
-{
-  $CMAKE \
-  -DCMAKE_C_COMPILER="$CC" \
-  -DCMAKE_CXX_COMPILER="$CXX" \
-  -DCMAKE_Fortran_COMPILER="$FC" \
-  -DCMAKE_C_FLAGS="$CFLAGS" \
-  -DCMAKE_CXX_FLAGS="$CXXFLAGS" \
-  -DCMAKE_Fortran_FLAGS="$FCFLAGS" \
-  $CMAKE_RPATH \
-  "$@"
-}
-set -e
-cd $INSTALL_PREFIX/casacore
-rm -rf build
-mkdir  build
-cd     build
-run_cmake \
-  -DCMAKE_BUILD_TYPE=Release \
-  -DCMAKE_INSTALL_PREFIX=$INSTALL_PREFIX/casacore \
-  -DDATA_DIR:PATH=$INSTALL_PREFIX/casacore/data \
-  -DUSE_OPENMP=True \
-  -DUSE_FFTW3=True \
-  -DUSE_HDF5=True \
-  -DBUILD_PYTHON:BOOL=False \
-  -DBUILD_PYTHON3:BOOL=True \
-  ../src
-make -j32
-make install
-exit
-DBoost_LIBRARY_DIR_RELEASE:PATH=/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib
-DBoost_PYTHON_LIBRARY_RELEASE:FILEPATH=/sw/env/cuda-10.2.89_gcc-8.3.0_openmpi-4.0.2/pkgsrc/2019Q4/lib/libboost_python36.so
-DBOOST_PYTHON3_LIBRARY_NAME:STRING=python
-DENABLE_TABLELOCKING=OFF
-../src/