(partial) EasyBuild log for failed build of /tmp/easybuild-naPOds/files_pr961/kmer-r1971-goolf-1.4.10.eb (PR #961)

kmer-r1971-goolf-1.4.10_partial.log

== 2014-07-08 21:58:17,555 main.ToolchainVariables_LIBLAPACK_MT_ONLY DEBUG sanitize: to_remove in [['openblas'], ['gfortran']] []
== 2014-07-08 21:58:17,556 main.ToolchainVariables_LIBLAPACK_MT_ONLY DEBUG __str__: return -lopenblas -lgfortran (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,556 main.ToolchainVariables_LIBBLAS DEBUG sanitize: to_remove in [['openblas'], ['gfortran']] []
== 2014-07-08 21:58:17,556 main.ToolchainVariables_LIBBLAS DEBUG __str__: return -lopenblas -lgfortran (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,556 main.ToolchainVariables_SCALAPACK_INC_DIR DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include']] []
== 2014-07-08 21:58:17,557 main.ToolchainVariables_SCALAPACK_INC_DIR DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include']])
== 2014-07-08 21:58:17,557 main.ToolchainVariables_OMPI_CC DEBUG __str__: return gcc (self: [['gcc']])
== 2014-07-08 21:58:17,557 main.ToolchainVariables_OPTFLAGS DEBUG __str__: return -O2 -march=native (self: [['O2'], ['march=native']])
== 2014-07-08 21:58:17,557 main.ToolchainVariables_PRECFLAGS DEBUG __str__: first is None (self [])
== 2014-07-08 21:58:17,558 main.ToolchainVariables_F77 DEBUG __str__: return gfortran (self: [['gfortran', None]])
== 2014-07-08 21:58:17,558 main.ToolchainVariables_LIBSCALAPACK_ONLY DEBUG sanitize: to_remove in [['scalapack'], ['gfortran']] []
== 2014-07-08 21:58:17,558 main.ToolchainVariables_LIBSCALAPACK_ONLY DEBUG __str__: return -lscalapack -lgfortran (self: [['scalapack'], ['gfortran']])
== 2014-07-08 21:58:17,558 main.ToolchainVariables_LAPACK_MT_STATIC_LIBS DEBUG sanitize: to_remove in [['openblas'], ['gfortran']] []
== 2014-07-08 21:58:17,559 main.ToolchainVariables_LAPACK_MT_STATIC_LIBS DEBUG __str__: return libopenblas.a,libgfortran.a (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,559 main.ToolchainVariables_LAPACK_LIB_DIR DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib']] []
== 2014-07-08 21:58:17,559 main.ToolchainVariables_LAPACK_LIB_DIR DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib']])
== 2014-07-08 21:58:17,559 main.ToolchainVariables_BLAS_LAPACK_STATIC_LIBS DEBUG sanitize: to_remove in [['openblas'], ['gfortran'], ['openblas'], ['gfortran']] [1, 0]
== 2014-07-08 21:58:17,560 main.ToolchainVariables_BLAS_LAPACK_STATIC_LIBS DEBUG __str__: return libopenblas.a,libgfortran.a (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,560 main.ToolchainVariables_MPIF77 DEBUG __str__: return mpif77 (self: [['mpif77', None]])
== 2014-07-08 21:58:17,560 main.ToolchainVariables_LIBBLAS_MT DEBUG sanitize: to_remove in [['openblas'], ['gfortran']] []
== 2014-07-08 21:58:17,560 main.ToolchainVariables_LIBBLAS_MT DEBUG __str__: return -lopenblas -lgfortran (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,561 main.ToolchainVariables_CXX DEBUG __str__: return g++ (self: [['g++', None]])
== 2014-07-08 21:58:17,561 main.ToolchainVariables_BLAS_LAPACK_INC_DIR DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include'], ['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include']] [0]
== 2014-07-08 21:58:17,561 main.ToolchainVariables_BLAS_LAPACK_INC_DIR DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include']])
== 2014-07-08 21:58:17,561 main.ToolchainVariables_OMPI_FC DEBUG __str__: return gfortran (self: [['gfortran']])
== 2014-07-08 21:58:17,561 main.ToolchainVariables_BLAS_INC_DIR DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include']] []
== 2014-07-08 21:58:17,562 main.ToolchainVariables_BLAS_INC_DIR DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include']])
== 2014-07-08 21:58:17,562 main.ToolchainVariables_MPI_LIB_SHARED DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so']] []
== 2014-07-08 21:58:17,562 main.ToolchainVariables_MPI_LIB_SHARED DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so']])
== 2014-07-08 21:58:17,562 main.ToolchainVariables_SCALAPACK_STATIC_LIBS DEBUG sanitize: to_remove in [['scalapack'], ['gfortran'], ['openblas'], ['gfortran'], ['openblas'], ['gfortran']] [3, 2, 1]
== 2014-07-08 21:58:17,563 main.ToolchainVariables_SCALAPACK_STATIC_LIBS DEBUG __str__: return libscalapack.a,libopenblas.a,libgfortran.a (self: [['scalapack'], ['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,563 main.ToolchainVariables_CFLAGS DEBUG __str__: return -O2 -march=native (self: [['O2'], ['march=native']])
== 2014-07-08 21:58:17,563 main.ToolchainVariables_BLAS_MT_STATIC_LIBS DEBUG sanitize: to_remove in [['openblas'], ['gfortran']] []
== 2014-07-08 21:58:17,563 main.ToolchainVariables_BLAS_MT_STATIC_LIBS DEBUG __str__: return libopenblas.a,libgfortran.a (self: [['openblas'], ['gfortran']])
== 2014-07-08 21:58:17,564 main.ToolchainVariables_FFTW_LIB_DIR DEBUG sanitize: to_remove in [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib']] []
== 2014-07-08 21:58:17,564 main.ToolchainVariables_FFTW_LIB_DIR DEBUG __str__: return /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib (self: [['/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib']])
== 2014-07-08 21:58:17,564 main.ToolchainVariables_OMPI_CXX DEBUG __str__: return g++ (self: [['g++']])
== 2014-07-08 21:58:17,564 main.Goolf DEBUG _setenv_variables: setting variables: donotset=False
== 2014-07-08 21:58:17,565 main.Goolf DEBUG _setenv_variables: setting environment variable CPPFLAGS to -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,565 main.environment INFO Environment variable CPPFLAGS set to -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,565 main.environment INFO Environment variable EBVARCPPFLAGS set to -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include -I/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,565 main.Goolf DEBUG _setenv_variables: setting environment variable MPI_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/include
== 2014-07-08 21:58:17,565 main.environment INFO Environment variable MPI_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/include
== 2014-07-08 21:58:17,566 main.environment INFO Environment variable EBVARMPI_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/include
== 2014-07-08 21:58:17,566 main.Goolf DEBUG _setenv_variables: setting environment variable LIBSCALAPACK to -lscalapack -lopenblas -lgfortran
== 2014-07-08 21:58:17,566 main.environment INFO Environment variable LIBSCALAPACK set to -lscalapack -lopenblas -lgfortran
== 2014-07-08 21:58:17,566 main.environment INFO Environment variable EBVARLIBSCALAPACK set to -lscalapack -lopenblas -lgfortran
== 2014-07-08 21:58:17,566 main.Goolf DEBUG _setenv_variables: setting environment variable MPI_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib
== 2014-07-08 21:58:17,567 main.environment INFO Environment variable MPI_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib
== 2014-07-08 21:58:17,567 main.environment INFO Environment variable EBVARMPI_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib
== 2014-07-08 21:58:17,567 main.Goolf DEBUG _setenv_variables: setting environment variable LAPACK_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,567 main.environment INFO Environment variable LAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,567 main.environment INFO Environment variable EBVARLAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,568 main.Goolf DEBUG _setenv_variables: setting environment variable FFT_STATIC_LIBS to libfftw3.a
== 2014-07-08 21:58:17,568 main.environment INFO Environment variable FFT_STATIC_LIBS set to libfftw3.a
== 2014-07-08 21:58:17,568 main.environment INFO Environment variable EBVARFFT_STATIC_LIBS set to libfftw3.a
== 2014-07-08 21:58:17,568 main.Goolf DEBUG _setenv_variables: setting environment variable CXXFLAGS to -O2 -march=native
== 2014-07-08 21:58:17,568 main.environment INFO Environment variable CXXFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,569 main.environment INFO Environment variable EBVARCXXFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,569 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,569 main.environment INFO Environment variable BLAS_LAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,569 main.environment INFO Environment variable EBVARBLAS_LAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,569 main.Goolf DEBUG _setenv_variables: setting environment variable MPICC to mpicc
== 2014-07-08 21:58:17,570 main.environment INFO Environment variable MPICC set to mpicc
== 2014-07-08 21:58:17,570 main.environment INFO Environment variable EBVARMPICC set to mpicc
== 2014-07-08 21:58:17,570 main.Goolf DEBUG _setenv_variables: setting environment variable MPI_LIB_STATIC to 
== 2014-07-08 21:58:17,570 main.environment INFO Environment variable MPI_LIB_STATIC set to 
== 2014-07-08 21:58:17,570 main.environment INFO Environment variable EBVARMPI_LIB_STATIC set to 
== 2014-07-08 21:58:17,571 main.Goolf DEBUG _setenv_variables: setting environment variable LIBS to -lm -lpthread
== 2014-07-08 21:58:17,571 main.environment INFO Environment variable LIBS set to -lm -lpthread
== 2014-07-08 21:58:17,571 main.environment INFO Environment variable EBVARLIBS set to -lm -lpthread
== 2014-07-08 21:58:17,571 main.Goolf DEBUG _setenv_variables: setting environment variable LIBLAPACK to -lopenblas -lgfortran
== 2014-07-08 21:58:17,571 main.environment INFO Environment variable LIBLAPACK set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,572 main.environment INFO Environment variable EBVARLIBLAPACK set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,572 main.Goolf DEBUG _setenv_variables: setting environment variable SCALAPACK_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,572 main.environment INFO Environment variable SCALAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,572 main.environment INFO Environment variable EBVARSCALAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,572 main.Goolf DEBUG _setenv_variables: setting environment variable PRECFLAGS to 
== 2014-07-08 21:58:17,573 main.environment INFO Environment variable PRECFLAGS set to 
== 2014-07-08 21:58:17,573 main.environment INFO Environment variable EBVARPRECFLAGS set to 
== 2014-07-08 21:58:17,573 main.Goolf DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_MT_ONLY to -lscalapack -lgfortran
== 2014-07-08 21:58:17,573 main.environment INFO Environment variable LIBSCALAPACK_MT_ONLY set to -lscalapack -lgfortran
== 2014-07-08 21:58:17,573 main.environment INFO Environment variable EBVARLIBSCALAPACK_MT_ONLY set to -lscalapack -lgfortran
== 2014-07-08 21:58:17,574 main.Goolf DEBUG _setenv_variables: setting environment variable LIBLAPACK_MT to -lopenblas -lgfortran
== 2014-07-08 21:58:17,574 main.environment INFO Environment variable LIBLAPACK_MT set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,574 main.environment INFO Environment variable EBVARLIBLAPACK_MT set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,574 main.Goolf DEBUG _setenv_variables: setting environment variable FLIBS to -lgfortran
== 2014-07-08 21:58:17,574 main.environment INFO Environment variable FLIBS set to -lgfortran
== 2014-07-08 21:58:17,575 main.environment INFO Environment variable EBVARFLIBS set to -lgfortran
== 2014-07-08 21:58:17,575 main.Goolf DEBUG _setenv_variables: setting environment variable FFTW_STATIC_LIBS to libfftw3.a
== 2014-07-08 21:58:17,575 main.environment INFO Environment variable FFTW_STATIC_LIBS set to libfftw3.a
== 2014-07-08 21:58:17,575 main.environment INFO Environment variable EBVARFFTW_STATIC_LIBS set to libfftw3.a
== 2014-07-08 21:58:17,575 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,576 main.environment INFO Environment variable BLAS_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,576 main.environment INFO Environment variable EBVARBLAS_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,576 main.Goolf DEBUG _setenv_variables: setting environment variable SCALAPACK_MT_STATIC_LIBS to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a
== 2014-07-08 21:58:17,576 main.environment INFO Environment variable SCALAPACK_MT_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a
== 2014-07-08 21:58:17,576 main.environment INFO Environment variable EBVARSCALAPACK_MT_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a,libpthread.a
== 2014-07-08 21:58:17,577 main.Goolf DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_MT to -lscalapack -lopenblas -lpthread -lgfortran
== 2014-07-08 21:58:17,577 main.environment INFO Environment variable LIBSCALAPACK_MT set to -lscalapack -lopenblas -lpthread -lgfortran
== 2014-07-08 21:58:17,577 main.environment INFO Environment variable EBVARLIBSCALAPACK_MT set to -lscalapack -lopenblas -lpthread -lgfortran
== 2014-07-08 21:58:17,577 main.Goolf DEBUG _setenv_variables: setting environment variable F90 to gfortran
== 2014-07-08 21:58:17,577 main.environment INFO Environment variable F90 set to gfortran
== 2014-07-08 21:58:17,578 main.environment INFO Environment variable EBVARF90 set to gfortran
== 2014-07-08 21:58:17,578 main.Goolf DEBUG _setenv_variables: setting environment variable OMPI_F77 to gfortran
== 2014-07-08 21:58:17,578 main.environment INFO Environment variable OMPI_F77 set to gfortran
== 2014-07-08 21:58:17,578 main.environment INFO Environment variable EBVAROMPI_F77 set to gfortran
== 2014-07-08 21:58:17,578 main.Goolf DEBUG _setenv_variables: setting environment variable LIBSCALAPACK_ONLY to -lscalapack -lgfortran
== 2014-07-08 21:58:17,579 main.environment INFO Environment variable LIBSCALAPACK_ONLY set to -lscalapack -lgfortran
== 2014-07-08 21:58:17,579 main.environment INFO Environment variable EBVARLIBSCALAPACK_ONLY set to -lscalapack -lgfortran
== 2014-07-08 21:58:17,579 main.Goolf DEBUG _setenv_variables: setting environment variable F90FLAGS to -O2 -march=native
== 2014-07-08 21:58:17,579 main.environment INFO Environment variable F90FLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,579 main.environment INFO Environment variable EBVARF90FLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,580 main.Goolf DEBUG _setenv_variables: setting environment variable MPICXX to mpicxx
== 2014-07-08 21:58:17,580 main.environment INFO Environment variable MPICXX set to mpicxx
== 2014-07-08 21:58:17,580 main.environment INFO Environment variable EBVARMPICXX set to mpicxx
== 2014-07-08 21:58:17,580 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,580 main.environment INFO Environment variable BLAS_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,581 main.environment INFO Environment variable EBVARBLAS_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,581 main.Goolf DEBUG _setenv_variables: setting environment variable FFT_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,581 main.environment INFO Environment variable FFT_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,581 main.environment INFO Environment variable EBVARFFT_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,581 main.Goolf DEBUG _setenv_variables: setting environment variable LIBFFT to -lfftw3
== 2014-07-08 21:58:17,582 main.environment INFO Environment variable LIBFFT set to -lfftw3
== 2014-07-08 21:58:17,582 main.environment INFO Environment variable EBVARLIBFFT set to -lfftw3
== 2014-07-08 21:58:17,582 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_MT_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,582 main.environment INFO Environment variable BLAS_LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,582 main.environment INFO Environment variable EBVARBLAS_LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,583 main.Goolf DEBUG _setenv_variables: setting environment variable CC to gcc
== 2014-07-08 21:58:17,583 main.environment INFO Environment variable CC set to gcc
== 2014-07-08 21:58:17,583 main.environment INFO Environment variable EBVARCC set to gcc
== 2014-07-08 21:58:17,583 main.Goolf DEBUG _setenv_variables: setting environment variable FFLAGS to -O2 -march=native
== 2014-07-08 21:58:17,583 main.environment INFO Environment variable FFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,584 main.environment INFO Environment variable EBVARFFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,584 main.Goolf DEBUG _setenv_variables: setting environment variable MPIF90 to mpif90
== 2014-07-08 21:58:17,584 main.environment INFO Environment variable MPIF90 set to mpif90
== 2014-07-08 21:58:17,584 main.environment INFO Environment variable EBVARMPIF90 set to mpif90
== 2014-07-08 21:58:17,584 main.Goolf DEBUG _setenv_variables: setting environment variable LAPACK_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,585 main.environment INFO Environment variable LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,585 main.environment INFO Environment variable EBVARLAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,585 main.Goolf DEBUG _setenv_variables: setting environment variable MPIF77 to mpif77
== 2014-07-08 21:58:17,585 main.environment INFO Environment variable MPIF77 set to mpif77
== 2014-07-08 21:58:17,585 main.environment INFO Environment variable EBVARMPIF77 set to mpif77
== 2014-07-08 21:58:17,586 main.Goolf DEBUG _setenv_variables: setting environment variable LIBBLAS_MT to -lopenblas -lgfortran
== 2014-07-08 21:58:17,586 main.environment INFO Environment variable LIBBLAS_MT set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,586 main.environment INFO Environment variable EBVARLIBBLAS_MT set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,586 main.Goolf DEBUG _setenv_variables: setting environment variable LIBBLAS to -lopenblas -lgfortran
== 2014-07-08 21:58:17,586 main.environment INFO Environment variable LIBBLAS set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,587 main.environment INFO Environment variable EBVARLIBBLAS set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,587 main.Goolf DEBUG _setenv_variables: setting environment variable SCALAPACK_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,587 main.environment INFO Environment variable SCALAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,587 main.environment INFO Environment variable EBVARSCALAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,587 main.Goolf DEBUG _setenv_variables: setting environment variable OMPI_CC to gcc
== 2014-07-08 21:58:17,588 main.environment INFO Environment variable OMPI_CC set to gcc
== 2014-07-08 21:58:17,588 main.environment INFO Environment variable EBVAROMPI_CC set to gcc
== 2014-07-08 21:58:17,588 main.Goolf DEBUG _setenv_variables: setting environment variable OPTFLAGS to -O2 -march=native
== 2014-07-08 21:58:17,588 main.environment INFO Environment variable OPTFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,588 main.environment INFO Environment variable EBVAROPTFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,589 main.Goolf DEBUG _setenv_variables: setting environment variable FFTW_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,589 main.environment INFO Environment variable FFTW_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,589 main.environment INFO Environment variable EBVARFFTW_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,589 main.Goolf DEBUG _setenv_variables: setting environment variable F77 to gfortran
== 2014-07-08 21:58:17,589 main.environment INFO Environment variable F77 set to gfortran
== 2014-07-08 21:58:17,590 main.environment INFO Environment variable EBVARF77 set to gfortran
== 2014-07-08 21:58:17,590 main.Goolf DEBUG _setenv_variables: setting environment variable FFT_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,590 main.environment INFO Environment variable FFT_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,590 main.environment INFO Environment variable EBVARFFT_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/include
== 2014-07-08 21:58:17,590 main.Goolf DEBUG _setenv_variables: setting environment variable LAPACK_MT_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,591 main.environment INFO Environment variable LAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,591 main.environment INFO Environment variable EBVARLAPACK_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,591 main.Goolf DEBUG _setenv_variables: setting environment variable LAPACK_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,591 main.environment INFO Environment variable LAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,592 main.environment INFO Environment variable EBVARLAPACK_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
== 2014-07-08 21:58:17,592 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,592 main.environment INFO Environment variable BLAS_LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,592 main.environment INFO Environment variable EBVARBLAS_LAPACK_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,592 main.Goolf DEBUG _setenv_variables: setting environment variable LIBLAPACK_ONLY to -lopenblas -lgfortran
== 2014-07-08 21:58:17,593 main.environment INFO Environment variable LIBLAPACK_ONLY set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,593 main.environment INFO Environment variable EBVARLIBLAPACK_ONLY set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,593 main.Goolf DEBUG _setenv_variables: setting environment variable LIBLAPACK_MT_ONLY to -lopenblas -lgfortran
== 2014-07-08 21:58:17,593 main.environment INFO Environment variable LIBLAPACK_MT_ONLY set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,593 main.environment INFO Environment variable EBVARLIBLAPACK_MT_ONLY set to -lopenblas -lgfortran
== 2014-07-08 21:58:17,594 main.Goolf DEBUG _setenv_variables: setting environment variable LDFLAGS to -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib64 -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,594 main.environment INFO Environment variable LDFLAGS set to -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib64 -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,594 main.environment INFO Environment variable EBVARLDFLAGS set to -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib64 -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/GCC/4.7.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib -L/net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,594 main.Goolf DEBUG _setenv_variables: setting environment variable CXX to g++
== 2014-07-08 21:58:17,594 main.environment INFO Environment variable CXX set to g++
== 2014-07-08 21:58:17,595 main.environment INFO Environment variable EBVARCXX set to g++
== 2014-07-08 21:58:17,595 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_LAPACK_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,595 main.environment INFO Environment variable BLAS_LAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,595 main.environment INFO Environment variable EBVARBLAS_LAPACK_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,595 main.Goolf DEBUG _setenv_variables: setting environment variable OMPI_FC to gfortran
== 2014-07-08 21:58:17,596 main.environment INFO Environment variable OMPI_FC set to gfortran
== 2014-07-08 21:58:17,596 main.environment INFO Environment variable EBVAROMPI_FC set to gfortran
== 2014-07-08 21:58:17,596 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_INC_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,596 main.environment INFO Environment variable BLAS_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,596 main.environment INFO Environment variable EBVARBLAS_INC_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
== 2014-07-08 21:58:17,597 main.Goolf DEBUG _setenv_variables: setting environment variable MPI_LIB_SHARED to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so
== 2014-07-08 21:58:17,597 main.environment INFO Environment variable MPI_LIB_SHARED set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so
== 2014-07-08 21:58:17,597 main.environment INFO Environment variable EBVARMPI_LIB_SHARED set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/OpenMPI/1.6.4-GCC-4.7.2/lib/libmpi.so
== 2014-07-08 21:58:17,597 main.Goolf DEBUG _setenv_variables: setting environment variable SCALAPACK_STATIC_LIBS to libscalapack.a,libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,597 main.environment INFO Environment variable SCALAPACK_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,598 main.environment INFO Environment variable EBVARSCALAPACK_STATIC_LIBS set to libscalapack.a,libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,598 main.Goolf DEBUG _setenv_variables: setting environment variable CFLAGS to -O2 -march=native
== 2014-07-08 21:58:17,598 main.environment INFO Environment variable CFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,598 main.environment INFO Environment variable EBVARCFLAGS set to -O2 -march=native
== 2014-07-08 21:58:17,598 main.Goolf DEBUG _setenv_variables: setting environment variable BLAS_MT_STATIC_LIBS to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,599 main.environment INFO Environment variable BLAS_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,599 main.environment INFO Environment variable EBVARBLAS_MT_STATIC_LIBS set to libopenblas.a,libgfortran.a
== 2014-07-08 21:58:17,599 main.Goolf DEBUG _setenv_variables: setting environment variable FFTW_LIB_DIR to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,599 main.environment INFO Environment variable FFTW_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,599 main.environment INFO Environment variable EBVARFFTW_LIB_DIR set to /net/gmi.oeaw.ac.at/software/mendel/29_04_2013/software/FFTW/3.3.3-gompi-1.4.10/lib
== 2014-07-08 21:58:17,600 main.Goolf DEBUG _setenv_variables: setting environment variable OMPI_CXX to g++
== 2014-07-08 21:58:17,600 main.environment INFO Environment variable OMPI_CXX set to g++
== 2014-07-08 21:58:17,600 main.environment INFO Environment variable EBVAROMPI_CXX set to g++
== 2014-07-08 21:58:17,600 main.MakeCp DEBUG Changed to real build directory /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/
== 2014-07-08 21:58:17,601 main.MakeCp INFO configuring...
== 2014-07-08 21:58:17,601 main.MakeCp INFO Starting configure step
== 2014-07-08 21:58:17,602 main.easyconfig.templates DEBUG config: {'preinstallopts': ['', 'Extra prefix options for installation.', (3, 'build')], 'configure_cmd_prefix': ['', 'Prefix to be glued before ./configure', (1, 'easyblock-specific')], 'docurls': [None, 'List of urls with documentation of the software (not necessarily on homepage)', (0, 'mandatory')], 'prebuildopts': ['', 'Extra options pre-passed to build command.', (3, 'build')], 'moduleloadnoconflict': [False, "Don't check for conflicts, unload other versions instead ", (8, 'modules')], 'skip': [False, 'Skip existing software', (3, 'build')], 'cleanupoldbuild': [True, 'Boolean to remove (True) or backup (False) the previous build directory with identical name or not.', (4, 'file-management')], 'runtest': [None, 'Indicates if a test should be run after make; should specify argument after make (for e.g.,"test" for make test)', (3, 'build')], 'sources': [['kmer-code-1971-trunk.zip'], 'List of source files', (3, 'build')], 'versionsuffix': ['-2014-04-11', 'Additional suffix for software version (placed after toolchain name)', (3, 'build')], 'exts_defaultclass': [None, 'List of module for and name of the default extension class', (7, 'extensions')], 'keeppreviousinstall': [False, 'Boolean to keep the previous installation with identical name. Experts only!', (4, 'file-management')], 'checksums': [[], 'Checksums for sources and patches', (3, 'build')], 'skipsteps': [[], 'Skip these steps', (3, 'build')], 'parsed': [True, 'This is a parsed easyconfig', 'HIDDEN'], 'builddependencies': [[], 'List of build dependencies', (5, 'dependencies')], 'modextravars': [{}, 'Extra environment variables to be added to module file', (8, 'modules')], 'unpack_options': [None, 'Extra options for unpacking source', (3, 'build')], 'group': [None, 'Name of the user group for which the software should be available', (6, 'license')], 'patches': [[], 'List of patches to apply', (3, 'build')], 'with_configure': [False, 'Run configure script before building', (3, 'build')], 'postinstallcmds': [[], 'Commands to run after the install step.', (3, 'build')], 'easybuild_version': [None, 'EasyBuild-version this spec-file was written for', (3, 'build')], 'keepsymlinks': [False, 'Boolean to determine whether symlinks are to be kept during copying or if the content of the files pointed to should be copied', (4, 'file-management')], 'start_dir': ['/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/', 'Path to start the make in. If the path is absolute, use that path. If not, this is added to the guessed path.', (4, 'file-management')], 'version': ['r1971', 'Version of software', (0, 'mandatory')], 'buildininstalldir': [False, 'Boolean to build (True) or not build (False) in the installation directory', (4, 'file-management')], 'allow_system_deps': [[], 'Allow listed system dependencies (format: (<name>, <version>))', (5, 'dependencies')], 'osdependencies': [[], 'OS dependencies that should be present on the system', (5, 'dependencies')], 'buildstats': [None, 'A list of dicts with build statistics', (9, 'other')], 'homepage': ['http://kmer.sourceforge.net/', 'The homepage of the software', (0, 'mandatory')], 'buildopts': [' install', 'Extra options passed to make step (default already has -j X)', (3, 'build')], 'license_file': [None, 'License file for software', (6, 'license')], 'tests': [[], 'List of test-scripts to run after install. A test script should return a non-zero exit status to fail', (3, 'build')], 'license_server': [None, 'License server for software', (6, 'license')], 'tar_config_opts': [False, 'Override tar settings as determined by configure.', (1, 'easyblock-specific')], 'description': [' The kmer package is a suite of tools for DNA sequence analysis. \n It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, \n mRNAs, whole genomes); and a variety of analyses based on kmers.', 'A short description of the software', (0, 'mandatory')], 'exts_list': [[], 'List with extensions added to the base installation', (7, 'extensions')], 'moduleclass': ['bio', 'Module class to be used for this software', (8, 'modules')], 'stop': [None, 'Keyword to halt the build process after a certain step.', (3, 'build')], 'source_urls': [['http://sourceforge.net/code-snapshots/svn/k/km/kmer/code/'], 'List of URLs for source files', (3, 'build')], 'exts_classmap': [{}, 'Map of extension name to class for handling build and installation.', (7, 'extensions')], 'moduleforceunload': [False, 'Force unload of all modules when loading the extension', (8, 'modules')], 'dependencies': [[], 'List of dependencies', (5, 'dependencies')], 'software_license_urls': [None, 'List of software license locations', (0, 'mandatory')], 'key': [None, 'Key for installing software', (6, 'license')], 'prefix_opt': ['--prefix=', 'Prefix command line option for configure script', (1, 'easyblock-specific')], 'toolchain': [{'version': '1.4.10', 'name': 'goolf'}, 'Name and version of toolchain', (0, 'mandatory')], 'parallel': [1, 'Degree of parallelism for e.g. make (default: based on the number of cores, active cpuset and restrictions in ulimit)', (3, 'build')], 'exts_filter': [None, 'Extension filter details: template for cmd and input to cmd (templates for name, version and src).', (7, 'extensions')], 'versionprefix': ['', 'Additional prefix for software version (placed before version and toolchain name)', (3, 'build')], 'sanity_check_paths': [{'files': ['bin/sim4db', 'bin/leaff', 'bin/meryl', 'bin/snapper2'], 'dirs': ['lib']}, "List of files and directories to check (format: {'files':<list>, 'dirs':<list>})", (3, 'build')], 'installopts': ['', 'Extra options for installation', (3, 'build')], 'onlytcmod': [False, 'Boolean/string to indicate if the toolchain should only load the environment with module (True) or also set all other variables (False) like compiler CC etc (if string: comma separated list of variables that will be ignored).', (2, 'toolchain')], 'unwanted_env_vars': [{}, "List of environment variables that shouldn't be set during build", (3, 'build')], 'name': ['kmer', 'Name of software', (0, 'mandatory')], 'maxparallel': [None, 'Max degree of parallelism', (3, 'build')], 'preconfigopts': ['', 'Extra options pre-passed to configure.', (3, 'build')], 'easyblock': ['MakeCp', 'EasyBlock to use for building', (3, 'build')], 'sanity_check_commands': [[], "format: [(name, options)] e.g. [('gzip','-h')]. Using a non-tuple is equivalent to (name, '-h')", (3, 'build')], 'license_server_port': [None, 'Port for license server', (6, 'license')], 'dontcreateinstalldir': [False, 'Boolean to create (False) or not create (True) the install directory', (4, 'file-management')], 'cleanupoldinstall': [True, 'Boolean to remove (True) or backup (False) the previous install directory with identical name or not.', (4, 'file-management')], 'toolchainopts': [None, 'Extra options for compilers', (2, 'toolchain')], 'software_license': [None, 'Software license', (0, 'mandatory')], 'files_to_copy': [['Linux-amd64/*'], 'List of files or dirs to copy', (0, 'mandatory')], 'configopts': ['', 'Extra options passed to configure (default already has --prefix)', (3, 'build')], 'modextrapaths': [{}, 'Extra paths to be prepended in module file', (8, 'modules')]}
== 2014-07-08 21:58:17,603 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,604 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,604 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,604 main.easyconfig.templates DEBUG name: name, config: kmer
== 2014-07-08 21:58:17,604 main.easyconfig.templates DEBUG name: version, config: r1971
== 2014-07-08 21:58:17,605 main.easyconfig.templates DEBUG name: versionsuffix, config: -2014-04-11
== 2014-07-08 21:58:17,605 main.easyconfig.templates DEBUG name: versionprefix, config: 
== 2014-07-08 21:58:17,606 main.easyconfig.templates DEBUG config: {'preinstallopts': ['', 'Extra prefix options for installation.', (3, 'build')], 'configure_cmd_prefix': ['', 'Prefix to be glued before ./configure', (1, 'easyblock-specific')], 'docurls': [None, 'List of urls with documentation of the software (not necessarily on homepage)', (0, 'mandatory')], 'prebuildopts': ['', 'Extra options pre-passed to build command.', (3, 'build')], 'moduleloadnoconflict': [False, "Don't check for conflicts, unload other versions instead ", (8, 'modules')], 'skip': [False, 'Skip existing software', (3, 'build')], 'cleanupoldbuild': [True, 'Boolean to remove (True) or backup (False) the previous build directory with identical name or not.', (4, 'file-management')], 'runtest': [None, 'Indicates if a test should be run after make; should specify argument after make (for e.g.,"test" for make test)', (3, 'build')], 'sources': [['kmer-code-1971-trunk.zip'], 'List of source files', (3, 'build')], 'versionsuffix': ['-2014-04-11', 'Additional suffix for software version (placed after toolchain name)', (3, 'build')], 'exts_defaultclass': [None, 'List of module for and name of the default extension class', (7, 'extensions')], 'keeppreviousinstall': [False, 'Boolean to keep the previous installation with identical name. Experts only!', (4, 'file-management')], 'checksums': [[], 'Checksums for sources and patches', (3, 'build')], 'skipsteps': [[], 'Skip these steps', (3, 'build')], 'parsed': [True, 'This is a parsed easyconfig', 'HIDDEN'], 'builddependencies': [[], 'List of build dependencies', (5, 'dependencies')], 'modextravars': [{}, 'Extra environment variables to be added to module file', (8, 'modules')], 'unpack_options': [None, 'Extra options for unpacking source', (3, 'build')], 'group': [None, 'Name of the user group for which the software should be available', (6, 'license')], 'patches': [[], 'List of patches to apply', (3, 'build')], 'with_configure': [False, 'Run configure script before building', (3, 'build')], 'postinstallcmds': [[], 'Commands to run after the install step.', (3, 'build')], 'easybuild_version': [None, 'EasyBuild-version this spec-file was written for', (3, 'build')], 'keepsymlinks': [False, 'Boolean to determine whether symlinks are to be kept during copying or if the content of the files pointed to should be copied', (4, 'file-management')], 'start_dir': ['/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/', 'Path to start the make in. If the path is absolute, use that path. If not, this is added to the guessed path.', (4, 'file-management')], 'version': ['r1971', 'Version of software', (0, 'mandatory')], 'buildininstalldir': [False, 'Boolean to build (True) or not build (False) in the installation directory', (4, 'file-management')], 'allow_system_deps': [[], 'Allow listed system dependencies (format: (<name>, <version>))', (5, 'dependencies')], 'osdependencies': [[], 'OS dependencies that should be present on the system', (5, 'dependencies')], 'buildstats': [None, 'A list of dicts with build statistics', (9, 'other')], 'homepage': ['http://kmer.sourceforge.net/', 'The homepage of the software', (0, 'mandatory')], 'buildopts': [' install', 'Extra options passed to make step (default already has -j X)', (3, 'build')], 'license_file': [None, 'License file for software', (6, 'license')], 'tests': [[], 'List of test-scripts to run after install. A test script should return a non-zero exit status to fail', (3, 'build')], 'license_server': [None, 'License server for software', (6, 'license')], 'tar_config_opts': [False, 'Override tar settings as determined by configure.', (1, 'easyblock-specific')], 'description': [' The kmer package is a suite of tools for DNA sequence analysis. \n It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, \n mRNAs, whole genomes); and a variety of analyses based on kmers.', 'A short description of the software', (0, 'mandatory')], 'exts_list': [[], 'List with extensions added to the base installation', (7, 'extensions')], 'moduleclass': ['bio', 'Module class to be used for this software', (8, 'modules')], 'stop': [None, 'Keyword to halt the build process after a certain step.', (3, 'build')], 'source_urls': [['http://sourceforge.net/code-snapshots/svn/k/km/kmer/code/'], 'List of URLs for source files', (3, 'build')], 'exts_classmap': [{}, 'Map of extension name to class for handling build and installation.', (7, 'extensions')], 'moduleforceunload': [False, 'Force unload of all modules when loading the extension', (8, 'modules')], 'dependencies': [[], 'List of dependencies', (5, 'dependencies')], 'software_license_urls': [None, 'List of software license locations', (0, 'mandatory')], 'key': [None, 'Key for installing software', (6, 'license')], 'prefix_opt': ['--prefix=', 'Prefix command line option for configure script', (1, 'easyblock-specific')], 'toolchain': [{'version': '1.4.10', 'name': 'goolf'}, 'Name and version of toolchain', (0, 'mandatory')], 'parallel': [1, 'Degree of parallelism for e.g. make (default: based on the number of cores, active cpuset and restrictions in ulimit)', (3, 'build')], 'exts_filter': [None, 'Extension filter details: template for cmd and input to cmd (templates for name, version and src).', (7, 'extensions')], 'versionprefix': ['', 'Additional prefix for software version (placed before version and toolchain name)', (3, 'build')], 'sanity_check_paths': [{'files': ['bin/sim4db', 'bin/leaff', 'bin/meryl', 'bin/snapper2'], 'dirs': ['lib']}, "List of files and directories to check (format: {'files':<list>, 'dirs':<list>})", (3, 'build')], 'installopts': ['', 'Extra options for installation', (3, 'build')], 'onlytcmod': [False, 'Boolean/string to indicate if the toolchain should only load the environment with module (True) or also set all other variables (False) like compiler CC etc (if string: comma separated list of variables that will be ignored).', (2, 'toolchain')], 'unwanted_env_vars': [{}, "List of environment variables that shouldn't be set during build", (3, 'build')], 'name': ['kmer', 'Name of software', (0, 'mandatory')], 'maxparallel': [None, 'Max degree of parallelism', (3, 'build')], 'preconfigopts': ['', 'Extra options pre-passed to configure.', (3, 'build')], 'easyblock': ['MakeCp', 'EasyBlock to use for building', (3, 'build')], 'sanity_check_commands': [[], "format: [(name, options)] e.g. [('gzip','-h')]. Using a non-tuple is equivalent to (name, '-h')", (3, 'build')], 'license_server_port': [None, 'Port for license server', (6, 'license')], 'dontcreateinstalldir': [False, 'Boolean to create (False) or not create (True) the install directory', (4, 'file-management')], 'cleanupoldinstall': [True, 'Boolean to remove (True) or backup (False) the previous install directory with identical name or not.', (4, 'file-management')], 'toolchainopts': [None, 'Extra options for compilers', (2, 'toolchain')], 'software_license': [None, 'Software license', (0, 'mandatory')], 'files_to_copy': [['Linux-amd64/*'], 'List of files or dirs to copy', (0, 'mandatory')], 'configopts': ['', 'Extra options passed to configure (default already has --prefix)', (3, 'build')], 'modextrapaths': [{}, 'Extra paths to be prepended in module file', (8, 'modules')]}
== 2014-07-08 21:58:17,607 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,607 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,608 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,608 main.easyconfig.templates DEBUG name: name, config: kmer
== 2014-07-08 21:58:17,608 main.easyconfig.templates DEBUG name: version, config: r1971
== 2014-07-08 21:58:17,608 main.easyconfig.templates DEBUG name: versionsuffix, config: -2014-04-11
== 2014-07-08 21:58:17,608 main.easyconfig.templates DEBUG name: versionprefix, config: 
== 2014-07-08 21:58:17,609 main.MakeCp INFO Running method configure_step part of step configure
== 2014-07-08 21:58:17,609 main.MakeCp INFO building...
== 2014-07-08 21:58:17,609 main.MakeCp INFO Starting build step
== 2014-07-08 21:58:17,610 main.easyconfig.templates DEBUG config: {'preinstallopts': ['', 'Extra prefix options for installation.', (3, 'build')], 'configure_cmd_prefix': ['', 'Prefix to be glued before ./configure', (1, 'easyblock-specific')], 'docurls': [None, 'List of urls with documentation of the software (not necessarily on homepage)', (0, 'mandatory')], 'prebuildopts': ['', 'Extra options pre-passed to build command.', (3, 'build')], 'moduleloadnoconflict': [False, "Don't check for conflicts, unload other versions instead ", (8, 'modules')], 'skip': [False, 'Skip existing software', (3, 'build')], 'cleanupoldbuild': [True, 'Boolean to remove (True) or backup (False) the previous build directory with identical name or not.', (4, 'file-management')], 'runtest': [None, 'Indicates if a test should be run after make; should specify argument after make (for e.g.,"test" for make test)', (3, 'build')], 'sources': [['kmer-code-1971-trunk.zip'], 'List of source files', (3, 'build')], 'versionsuffix': ['-2014-04-11', 'Additional suffix for software version (placed after toolchain name)', (3, 'build')], 'exts_defaultclass': [None, 'List of module for and name of the default extension class', (7, 'extensions')], 'keeppreviousinstall': [False, 'Boolean to keep the previous installation with identical name. Experts only!', (4, 'file-management')], 'checksums': [[], 'Checksums for sources and patches', (3, 'build')], 'skipsteps': [[], 'Skip these steps', (3, 'build')], 'parsed': [True, 'This is a parsed easyconfig', 'HIDDEN'], 'builddependencies': [[], 'List of build dependencies', (5, 'dependencies')], 'modextravars': [{}, 'Extra environment variables to be added to module file', (8, 'modules')], 'unpack_options': [None, 'Extra options for unpacking source', (3, 'build')], 'group': [None, 'Name of the user group for which the software should be available', (6, 'license')], 'patches': [[], 'List of patches to apply', (3, 'build')], 'with_configure': [False, 'Run configure script before building', (3, 'build')], 'postinstallcmds': [[], 'Commands to run after the install step.', (3, 'build')], 'easybuild_version': [None, 'EasyBuild-version this spec-file was written for', (3, 'build')], 'keepsymlinks': [False, 'Boolean to determine whether symlinks are to be kept during copying or if the content of the files pointed to should be copied', (4, 'file-management')], 'start_dir': ['/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/', 'Path to start the make in. If the path is absolute, use that path. If not, this is added to the guessed path.', (4, 'file-management')], 'version': ['r1971', 'Version of software', (0, 'mandatory')], 'buildininstalldir': [False, 'Boolean to build (True) or not build (False) in the installation directory', (4, 'file-management')], 'allow_system_deps': [[], 'Allow listed system dependencies (format: (<name>, <version>))', (5, 'dependencies')], 'osdependencies': [[], 'OS dependencies that should be present on the system', (5, 'dependencies')], 'buildstats': [None, 'A list of dicts with build statistics', (9, 'other')], 'homepage': ['http://kmer.sourceforge.net/', 'The homepage of the software', (0, 'mandatory')], 'buildopts': [' install', 'Extra options passed to make step (default already has -j X)', (3, 'build')], 'license_file': [None, 'License file for software', (6, 'license')], 'tests': [[], 'List of test-scripts to run after install. A test script should return a non-zero exit status to fail', (3, 'build')], 'license_server': [None, 'License server for software', (6, 'license')], 'tar_config_opts': [False, 'Override tar settings as determined by configure.', (1, 'easyblock-specific')], 'description': [' The kmer package is a suite of tools for DNA sequence analysis. \n It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, \n mRNAs, whole genomes); and a variety of analyses based on kmers.', 'A short description of the software', (0, 'mandatory')], 'exts_list': [[], 'List with extensions added to the base installation', (7, 'extensions')], 'moduleclass': ['bio', 'Module class to be used for this software', (8, 'modules')], 'stop': [None, 'Keyword to halt the build process after a certain step.', (3, 'build')], 'source_urls': [['http://sourceforge.net/code-snapshots/svn/k/km/kmer/code/'], 'List of URLs for source files', (3, 'build')], 'exts_classmap': [{}, 'Map of extension name to class for handling build and installation.', (7, 'extensions')], 'moduleforceunload': [False, 'Force unload of all modules when loading the extension', (8, 'modules')], 'dependencies': [[], 'List of dependencies', (5, 'dependencies')], 'software_license_urls': [None, 'List of software license locations', (0, 'mandatory')], 'key': [None, 'Key for installing software', (6, 'license')], 'prefix_opt': ['--prefix=', 'Prefix command line option for configure script', (1, 'easyblock-specific')], 'toolchain': [{'version': '1.4.10', 'name': 'goolf'}, 'Name and version of toolchain', (0, 'mandatory')], 'parallel': [1, 'Degree of parallelism for e.g. make (default: based on the number of cores, active cpuset and restrictions in ulimit)', (3, 'build')], 'exts_filter': [None, 'Extension filter details: template for cmd and input to cmd (templates for name, version and src).', (7, 'extensions')], 'versionprefix': ['', 'Additional prefix for software version (placed before version and toolchain name)', (3, 'build')], 'sanity_check_paths': [{'files': ['bin/sim4db', 'bin/leaff', 'bin/meryl', 'bin/snapper2'], 'dirs': ['lib']}, "List of files and directories to check (format: {'files':<list>, 'dirs':<list>})", (3, 'build')], 'installopts': ['', 'Extra options for installation', (3, 'build')], 'onlytcmod': [False, 'Boolean/string to indicate if the toolchain should only load the environment with module (True) or also set all other variables (False) like compiler CC etc (if string: comma separated list of variables that will be ignored).', (2, 'toolchain')], 'unwanted_env_vars': [{}, "List of environment variables that shouldn't be set during build", (3, 'build')], 'name': ['kmer', 'Name of software', (0, 'mandatory')], 'maxparallel': [None, 'Max degree of parallelism', (3, 'build')], 'preconfigopts': ['', 'Extra options pre-passed to configure.', (3, 'build')], 'easyblock': ['MakeCp', 'EasyBlock to use for building', (3, 'build')], 'sanity_check_commands': [[], "format: [(name, options)] e.g. [('gzip','-h')]. Using a non-tuple is equivalent to (name, '-h')", (3, 'build')], 'license_server_port': [None, 'Port for license server', (6, 'license')], 'dontcreateinstalldir': [False, 'Boolean to create (False) or not create (True) the install directory', (4, 'file-management')], 'cleanupoldinstall': [True, 'Boolean to remove (True) or backup (False) the previous install directory with identical name or not.', (4, 'file-management')], 'toolchainopts': [None, 'Extra options for compilers', (2, 'toolchain')], 'software_license': [None, 'Software license', (0, 'mandatory')], 'files_to_copy': [['Linux-amd64/*'], 'List of files or dirs to copy', (0, 'mandatory')], 'configopts': ['', 'Extra options passed to configure (default already has --prefix)', (3, 'build')], 'modextrapaths': [{}, 'Extra paths to be prepended in module file', (8, 'modules')]}
== 2014-07-08 21:58:17,611 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,612 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,612 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,612 main.easyconfig.templates DEBUG name: name, config: kmer
== 2014-07-08 21:58:17,612 main.easyconfig.templates DEBUG name: version, config: r1971
== 2014-07-08 21:58:17,613 main.easyconfig.templates DEBUG name: versionsuffix, config: -2014-04-11
== 2014-07-08 21:58:17,613 main.easyconfig.templates DEBUG name: versionprefix, config: 
== 2014-07-08 21:58:17,614 main.easyconfig.templates DEBUG config: {'preinstallopts': ['', 'Extra prefix options for installation.', (3, 'build')], 'configure_cmd_prefix': ['', 'Prefix to be glued before ./configure', (1, 'easyblock-specific')], 'docurls': [None, 'List of urls with documentation of the software (not necessarily on homepage)', (0, 'mandatory')], 'prebuildopts': ['', 'Extra options pre-passed to build command.', (3, 'build')], 'moduleloadnoconflict': [False, "Don't check for conflicts, unload other versions instead ", (8, 'modules')], 'skip': [False, 'Skip existing software', (3, 'build')], 'cleanupoldbuild': [True, 'Boolean to remove (True) or backup (False) the previous build directory with identical name or not.', (4, 'file-management')], 'runtest': [None, 'Indicates if a test should be run after make; should specify argument after make (for e.g.,"test" for make test)', (3, 'build')], 'sources': [['kmer-code-1971-trunk.zip'], 'List of source files', (3, 'build')], 'versionsuffix': ['-2014-04-11', 'Additional suffix for software version (placed after toolchain name)', (3, 'build')], 'exts_defaultclass': [None, 'List of module for and name of the default extension class', (7, 'extensions')], 'keeppreviousinstall': [False, 'Boolean to keep the previous installation with identical name. Experts only!', (4, 'file-management')], 'checksums': [[], 'Checksums for sources and patches', (3, 'build')], 'skipsteps': [[], 'Skip these steps', (3, 'build')], 'parsed': [True, 'This is a parsed easyconfig', 'HIDDEN'], 'builddependencies': [[], 'List of build dependencies', (5, 'dependencies')], 'modextravars': [{}, 'Extra environment variables to be added to module file', (8, 'modules')], 'unpack_options': [None, 'Extra options for unpacking source', (3, 'build')], 'group': [None, 'Name of the user group for which the software should be available', (6, 'license')], 'patches': [[], 'List of patches to apply', (3, 'build')], 'with_configure': [False, 'Run configure script before building', (3, 'build')], 'postinstallcmds': [[], 'Commands to run after the install step.', (3, 'build')], 'easybuild_version': [None, 'EasyBuild-version this spec-file was written for', (3, 'build')], 'keepsymlinks': [False, 'Boolean to determine whether symlinks are to be kept during copying or if the content of the files pointed to should be copied', (4, 'file-management')], 'start_dir': ['/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/', 'Path to start the make in. If the path is absolute, use that path. If not, this is added to the guessed path.', (4, 'file-management')], 'version': ['r1971', 'Version of software', (0, 'mandatory')], 'buildininstalldir': [False, 'Boolean to build (True) or not build (False) in the installation directory', (4, 'file-management')], 'allow_system_deps': [[], 'Allow listed system dependencies (format: (<name>, <version>))', (5, 'dependencies')], 'osdependencies': [[], 'OS dependencies that should be present on the system', (5, 'dependencies')], 'buildstats': [None, 'A list of dicts with build statistics', (9, 'other')], 'homepage': ['http://kmer.sourceforge.net/', 'The homepage of the software', (0, 'mandatory')], 'buildopts': [' install', 'Extra options passed to make step (default already has -j X)', (3, 'build')], 'license_file': [None, 'License file for software', (6, 'license')], 'tests': [[], 'List of test-scripts to run after install. A test script should return a non-zero exit status to fail', (3, 'build')], 'license_server': [None, 'License server for software', (6, 'license')], 'tar_config_opts': [False, 'Override tar settings as determined by configure.', (1, 'easyblock-specific')], 'description': [' The kmer package is a suite of tools for DNA sequence analysis. \n It provides tools for searching (ESTs, mRNAs, sequencing reads); aligning (ESTs, \n mRNAs, whole genomes); and a variety of analyses based on kmers.', 'A short description of the software', (0, 'mandatory')], 'exts_list': [[], 'List with extensions added to the base installation', (7, 'extensions')], 'moduleclass': ['bio', 'Module class to be used for this software', (8, 'modules')], 'stop': [None, 'Keyword to halt the build process after a certain step.', (3, 'build')], 'source_urls': [['http://sourceforge.net/code-snapshots/svn/k/km/kmer/code/'], 'List of URLs for source files', (3, 'build')], 'exts_classmap': [{}, 'Map of extension name to class for handling build and installation.', (7, 'extensions')], 'moduleforceunload': [False, 'Force unload of all modules when loading the extension', (8, 'modules')], 'dependencies': [[], 'List of dependencies', (5, 'dependencies')], 'software_license_urls': [None, 'List of software license locations', (0, 'mandatory')], 'key': [None, 'Key for installing software', (6, 'license')], 'prefix_opt': ['--prefix=', 'Prefix command line option for configure script', (1, 'easyblock-specific')], 'toolchain': [{'version': '1.4.10', 'name': 'goolf'}, 'Name and version of toolchain', (0, 'mandatory')], 'parallel': [1, 'Degree of parallelism for e.g. make (default: based on the number of cores, active cpuset and restrictions in ulimit)', (3, 'build')], 'exts_filter': [None, 'Extension filter details: template for cmd and input to cmd (templates for name, version and src).', (7, 'extensions')], 'versionprefix': ['', 'Additional prefix for software version (placed before version and toolchain name)', (3, 'build')], 'sanity_check_paths': [{'files': ['bin/sim4db', 'bin/leaff', 'bin/meryl', 'bin/snapper2'], 'dirs': ['lib']}, "List of files and directories to check (format: {'files':<list>, 'dirs':<list>})", (3, 'build')], 'installopts': ['', 'Extra options for installation', (3, 'build')], 'onlytcmod': [False, 'Boolean/string to indicate if the toolchain should only load the environment with module (True) or also set all other variables (False) like compiler CC etc (if string: comma separated list of variables that will be ignored).', (2, 'toolchain')], 'unwanted_env_vars': [{}, "List of environment variables that shouldn't be set during build", (3, 'build')], 'name': ['kmer', 'Name of software', (0, 'mandatory')], 'maxparallel': [None, 'Max degree of parallelism', (3, 'build')], 'preconfigopts': ['', 'Extra options pre-passed to configure.', (3, 'build')], 'easyblock': ['MakeCp', 'EasyBlock to use for building', (3, 'build')], 'sanity_check_commands': [[], "format: [(name, options)] e.g. [('gzip','-h')]. Using a non-tuple is equivalent to (name, '-h')", (3, 'build')], 'license_server_port': [None, 'Port for license server', (6, 'license')], 'dontcreateinstalldir': [False, 'Boolean to create (False) or not create (True) the install directory', (4, 'file-management')], 'cleanupoldinstall': [True, 'Boolean to remove (True) or backup (False) the previous install directory with identical name or not.', (4, 'file-management')], 'toolchainopts': [None, 'Extra options for compilers', (2, 'toolchain')], 'software_license': [None, 'Software license', (0, 'mandatory')], 'files_to_copy': [['Linux-amd64/*'], 'List of files or dirs to copy', (0, 'mandatory')], 'configopts': ['', 'Extra options passed to configure (default already has --prefix)', (3, 'build')], 'modextrapaths': [{}, 'Extra paths to be prepended in module file', (8, 'modules')]}
== 2014-07-08 21:58:17,615 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,615 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,616 main.easyconfig.templates DEBUG version found in easyconfig is r1971
== 2014-07-08 21:58:17,616 main.easyconfig.templates DEBUG name: name, config: kmer
== 2014-07-08 21:58:17,616 main.easyconfig.templates DEBUG name: version, config: r1971
== 2014-07-08 21:58:17,616 main.easyconfig.templates DEBUG name: versionsuffix, config: -2014-04-11
== 2014-07-08 21:58:17,617 main.easyconfig.templates DEBUG name: versionprefix, config: 
== 2014-07-08 21:58:17,617 main.MakeCp INFO Running method build_step part of step build
== 2014-07-08 21:58:17,617 main.easyconfig.easyconfig WARNING Deprecated functionality, will no longer work in v2.0: Easyconfig parameter 'premakeopts' is deprecated, use 'prebuildopts' instead.
== 2014-07-08 21:58:17,617 main.easyconfig.easyconfig WARNING Deprecated functionality, will no longer work in v2.0: Easyconfig parameter 'makeopts' is deprecated, use 'buildopts' instead.
== 2014-07-08 21:58:17,618 main.run DEBUG run_cmd: running cmd . /etc/profile.d/modules.sh &&  make -j 1  install (in /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk)
== 2014-07-08 21:58:32,582 main.run ERROR EasyBuild crashed with an error (at easybuild/tools/run.py:382 in parse_cmd_output): cmd ". /etc/profile.d/modules.sh &&  make -j 1  install" exited with exitcode 2 and output:
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/sfx.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/list.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/hash.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/except.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/dict.c.d
gcc -O2 -march=native -m64 -fPIC -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.o -c /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.c
/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.c: In function ‘mtRandomGaussian’:
/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.c:166:34: warning: variable ‘y2’ set but not used [-Wunused-but-set-variable]
gcc -O2 -march=native -m64 -fPIC -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test.o -c /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test.c
gcc -L/usr/local/lib -o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test.o -pthread -ldl -lm -lbz2
/usr/bin/ld: cannot find -lbz2
collect2: error: ld returned 1 exit status
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/sweatShop.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/speedCounter.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/recordFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/readBuffer.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/intervalList.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/fibonacciNumbers.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/bitPackedFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/bitPackedArray.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/bigQueue.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/util.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/qsort_mt.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/palloc.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/md5.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/file.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/test-merStream.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/test-seqStream.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/test-seqCache.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/merStream.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/seqStream.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/seqCache.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/seqFactory.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/sffFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/seqStore.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/fastaStdin.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/fastqFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/fastaFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/kmer.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/reversecomplement.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/halign.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/alphabet-colorspace.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/alphabet-acgtspace.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/alphabet.c.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libmeryl/libmeryl.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/mask.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/percentCovered.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/driver-posDB.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/driver-existDB.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB-sort.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB-mismatch.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB-file.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB-dump.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/positionDB-access.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/existDB.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/existDB-state.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/existDB-create-from-sequence.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/existDB-create-from-meryl.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/existDB-create-from-fasta.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polishWriter.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polishReader.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polishFile.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polishBuilder.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polishList.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-updatescores.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-stringtopolish.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-read.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-polishtostring.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-exons.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-deleteexon.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-copy.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4polish/sim4polish-compare.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/util.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/table.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/splice.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sites_score.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sites_acceptor.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sites_donor.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sites.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1_s.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1-4.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1-3.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1-2.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1-1.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1a.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4b1.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/poly.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/pluri_align.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/mspManager.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/greedy.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/glimmerSplice.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/extend.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/exon_cores.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/align.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/Xtend1.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4string.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4parameters.C.d
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/sim4core/sim4command.C.d
making tapper/tappererrorcorrect.C.d
making tapper/tappersort.C.d
making tapper/tappermerge.C.d
making tapper/tapperconvert.C.d
making tapper/tapper.C.d
making tapper/tagger.C.d
making snapper/hitMatrix-sort.C.d
making snapper/hitMatrix.C.d
making snapper/thr-polish-dp.C.d
making snapper/thr-polish.C.d
making snapper/thr-filter.C.d
making snapper/thr-search.C.d
making snapper/configuration.C.d
making snapper/snapper2.C.d
making sim4db/sim4th.C.d
making sim4dbutils/s4p_overlap.C.d
making sim4dbutils/reportAlignmentDifferences.C.d
making sim4dbutils/removeRedundant.C.d
making sim4dbutils/realignPolishes.C.d
making sim4dbutils/vennPolishes.C.d
making sim4dbutils/uniqPolishes.C.d
making sim4dbutils/summarizePolishes.C.d
making sim4dbutils/sortPolishes.C.d
making sim4dbutils/removeDuplicate.C.d
making sim4dbutils/plotCoverageVsIdentity.C.d
making sim4dbutils/pickUniquePolish.C.d
making sim4dbutils/pickBestPair.C.d
making sim4dbutils/pickBestPolish.C.d
making sim4dbutils/parseSNP.C.d
making sim4dbutils/mergePolishes.C.d
making sim4dbutils/mappedCoverage.C.d
making sim4dbutils/headPolishes.C.d
making sim4dbutils/filterPolishes.C.d
making sim4dbutils/depthOfPolishes.C.d
making sim4dbutils/detectChimera.C.d
making sim4dbutils/convertPolishes.C.d
making sim4dbutils/convertToExtent.C.d
making sim4dbutils/convertToAtac.C.d
making sim4dbutils/comparePolishes.C.d
making sim4dbutils/fixPolishesIID.C.d
making sim4dbutils/cleanPolishes.C.d
making seagen/hitMatrix.C.d
making seagen/hitReader.C.d
making seagen/filtertest.C.d
making seagen/sortHits.C.d
making seagen/filterNULL.C.d
making seagen/filterMRNA.C.d
making seagen/filterEST-complicated.C.d
making seagen/filterEST.C.d
making seagen/hitConverter.C.d
making seagen/aHit.C.d
making seagen/hitMatrix-sort.C.d
making seagen/thr-output.C.d
making seagen/thr-search.C.d
making seagen/thr-loader.C.d
making seagen/thr-deadlock.C.d
making seagen/encodedQuery.C.d
making seagen/configuration.C.d
making seagen/searchGENOME.C.d
making meryl/simple.C.d
making meryl/compare-counts.C.d
making meryl/maskMers.C.d
making meryl/mapMers-depth.C.d
making meryl/mapMers.C.d
making meryl/asmMerQC.C.d
making meryl/mervin.C.d
making meryl/meryl.C.d
making meryl/unaryOp.C.d
making meryl/merge.C.d
making meryl/estimate.C.d
making meryl/dump.C.d
making meryl/build-threads.C.d
making meryl/build.C.d
making meryl/binaryOp.C.d
making meryl/args.C.d
making leaff/stats.C.d
making leaff/simseq.C.d
making leaff/partition.C.d
making leaff/gc.C.d
making leaff/dups.C.d
making leaff/blocks.C.d
making leaff/leaff.C.d
making seatac/hitMatrix-sort.C.d
making seatac/thr-deadlock.C.d
making seatac/thr-loader.C.d
making seatac/thr-search.C.d
making seatac/hitMatrix.C.d
making seatac/encodedQuery.C.d
making seatac/configuration.C.d
making seatac/seatac.C.d
making atac-driver/chimera/happy-clones-span-clumps.C.d
making atac-driver/chainer/halign/halignmodule.C.d
making atac-driver/chainer/halign/halign.C.d
making atac-driver/chainer/localalign/localAlignerInterfacemodule.C.d
making atac-driver/chainer/localalign/GF_ALN_pieceOlap.C.d
making atac-driver/chainer/localalign/GF_ALN_loverlapper.C.d
making atac-driver/chainer/localalign/GF_ALN_overlap.C.d
making atac-driver/chainer/localalign/GF_ALN_local.C.d
making atac-driver/chainer/localalign/GF_ALN_dpaligner.C.d
making atac-driver/clumpMaker/clumpMaker.C.d
making atac-driver/uniqueFilter/uniqueFilter.C.d
making atac-driver/statsGenerator/statsGenerator.C.d
making atac-driver/mismatchCounter/mismatchCounter.C.d
making atac-driver/matchExtender/matchExtender-func.C.d
making atac-driver/matchExtender/matchExtender-dump.C.d
making atac-driver/matchExtender/matchExtender.C.d
making atac-driver/lengthFilter/lengthFilter.C.d
making atac-driver/gapShifter/projectFeatures.C.d
making atac-driver/gapShifter/cleanAtac.C.d
making atac-driver/gapShifter/testAtac.C.d
making atac-driver/gapShifter/correctGaps.C.d
making atac-driver/gapShifter/coalesceMatches.C.d
making atac-driver/gapShifter/extractUnmapped.C.d
making atac-driver/gapShifter/extractSequence.C.d
making atac-driver/gapShifter/gapShifter.C.d
making atac-driver/alignOverlap/overlap-find.C.d
making atac-driver/alignOverlap/overlap-printAnno.C.d
making atac-driver/alignOverlap/overlap-sort.C.d
making atac-driver/alignOverlap/overlap.C.d
making atac-driver/libatac/atacMatchOrder.C.d
making atac-driver/libatac/atacMatchList.C.d
making atac-driver/libatac/atacMatch.C.d
making atac-driver/libatac/atacFileStreamMerge.C.d
making atac-driver/libatac/atacFile.C.d
making atac-driver/libatac/atacFeatureList.C.d
making atac-driver/libatac/atacFeature.C.d
making ESTmapper/terminate.C.d
making ESTmapper/mergeCounts.C.d
gcc -L/usr/local/lib -o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar.o /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/mt19937ar/mt19937ar-test.o -pthread -ldl -lm -lbz2
/usr/bin/ld: cannot find -lbz2
collect2: error: ld returned 1 exit status
g++ -O2 -march=native -I/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libkmer/ -I/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libbio/ -I/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libseq/ -I/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libsim4/ -I/home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/ -m64 -fPIC -D_REENTRANT -O3 -D_THREAD_SAFE -pthread -fmessage-length=0 -Wall -Wno-char-subscripts -funroll-loops -fexpensive-optimizations -finline-functions -fomit-frame-pointer -o ESTmapper/mergeCounts.o -c ESTmapper/mergeCounts.C
g++ -L/usr/local/lib -o ESTmapper/mergeCounts ESTmapper/mergeCounts.o -pthread -ldl -lm -lbz2
/usr/bin/ld: cannot find -lbz2
collect2: error: ld returned 1 exit status
make: *** [ESTmapper/mergeCounts] Error 1

== 2014-07-08 21:58:32,583 main.easyblock.<module> WARNING build failed (first 300 chars): EasyBuild crashed with an error (at easybuild/tools/run.py:382 in parse_cmd_output): cmd ". /etc/profile.d/modules.sh &&  make -j 1  install" exited with exitcode 2 and output:
making /home/GMI/petar.forai/.local/easybuild/build/kmer/r1971/goolf-1.4.10-2014-04-11/kmer-code-1971-trunk/libutil/kazlib/
== 2014-07-08 21:58:32,583 main.MakeCp INFO Closing log for application name kmer version r1971