Moab 5.0 and meshkit 1.5 (#4557)
* enable some of the tools do not make zoltan default * modify moab package add shared, debug options to cgm, too build some tools by default (mbsize, mbconvert) add hdf5, netcdf dependency add pnetcdf variant (dependency), metis, parmetis, zoltan add shared, debug, fortran options to moab * few kinks for moab zoltan should be built without fortran api, otherwise moab complains (need to fix) also, notice that when built with cgm, shared can't find cgm libraries for the new tools/geometry execs install in serial for the time being (because of example makefile duplicate?) for example, these builds are successful: spack install moab+mpi+hdf5+zoltan ^mpich@3.2 spack install moab+mpi+hdf5+shared ^mpich@3.2 * force hdf5+mpi if both are specified also, something like this works: spack install moab+mpi+hdf5+cgm ^mpich@3.2 ^cgm+oce+mpi ^oce@0.17.2 use mpich32, and cgm built with oce 0.17.2 * forgot about irel, fbigeom, mbcoupler * add meshkit package simple build so far, moab and cgm deps only also, an example of complex build for cgm spack install moab+mpi+hdf5+cgm+irel+fbigeom ^mpich@3.2 ^cgm+oce+mpi ^oce@0.17.2 * for meshkit, moab needs to have irel, fbigeom * forgot to self.spec after building moab with cgm with oce 0.17.2, we can build meshkit with something like this spack install meshkit ^moab/tsb75zk cgm depencency is found out from moab moab has to be built with irel and fbigeom * add netgen package and review do not support yet older versions of meshkit (which depend on lasso, etc) add netgen package; tested with meshkit (netgen has to be built without occ, for meshkit) We are not enforcing that yet, we may have to test * use conflicts where needed, suggested by review remove release candidates * flake8 alignment errors * flake8 * reviews flake8 alignment explicit options, even for default variants variant for netgen should be "gui", with the default ~gui (False) FIXME: with-occ does not work right for netgen ; maybe it should be disabled? also, with +gui, it should depend on a lot more, like tk, tcl? * flake8 issues whitespaces and a comment in netgen * add more explicit options --without-mpi needs fixing for cgm, moab and meshkit add variable url for netgen (although we don''t know if other versions will appear) * flake8, trailing whitespace
This commit is contained in:
iulian787
committed by
Adam J. Stewart
Adam J. Stewart
parent
811ea4f465
commit
75b8d728bd
@@ -25,7 +25,7 @@
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from spack import *
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class Moab(Package):
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class Moab(AutotoolsPackage):
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"""MOAB is a component for representing and evaluating mesh
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data. MOAB can store structured and unstructured mesh, consisting
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of elements in the finite element 'zoo.' The functional interface
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@@ -34,19 +34,43 @@ class Moab(Package):
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optimized for efficiency in space and time, based on access to
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mesh in chunks rather than through individual entities, while also
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versatile enough to support individual entity access."""
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homepage = "https://bitbucket.org/fathomteam/moab"
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url = "http://ftp.mcs.anl.gov/pub/fathom/moab-4.9.1.tar.gz"
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homepage = "https://bitbucket.org/fathomteam/moab"
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url = "http://ftp.mcs.anl.gov/pub/fathom/moab-5.0.0.tar.gz"
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version('5.0.0', '1840ca02366f4d3237d44af63e239e3b')
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version('4.9.2', '540931a604c180bbd3c1bb3ee8c51dd0')
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version('4.9.1', '19cc2189fa266181ad9109b18d0b2ab8')
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version('4.9.0', '40695d0a159040683cfa05586ad4a7c2')
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version('4.8.2', '1dddd10f162fce3cfffaedc48f6f467d')
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variant('mpi', default=True, description='enable mpi support')
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variant('hdf5', default=True,
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description='Required to enable the hdf5 (default I/O) format')
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variant('netcdf', default=False,
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description='Required to enable the ExodusII reader/writer.')
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variant('shared', default=True,
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variant('pnetcdf', default=False,
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description='Enable pnetcdf (AKA parallel-netcdf) support')
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variant('netcdf', default=False,
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description='Required to enable the ExodusII reader/writer.')
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variant('zoltan', default=False, description='Enable zoltan support')
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variant('cgm', default=False, description='Enable common geometric module')
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variant('metis', default=True, description='Enable metis link')
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variant('parmetis', default=True, description='Enable parmetis link')
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variant('irel', default=False, description='Enable irel interface')
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variant('fbigeom', default=False, description='Enable fbigeom interface')
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variant('coupler', default=True, description='Enable mbcoupler tool')
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variant("debug", default=False, description='enable debug symbols')
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variant('shared', default=False,
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description='Enables the build of shared libraries')
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variant('fortran', default=True, description='Enable Fortran support')
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conflicts('+irel', when='~cgm')
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conflicts('+pnetcdf', when='~mpi')
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conflicts('+parmetis', when='~mpi')
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conflicts('+coupler', when='~mpi')
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# There are many possible variants for MOAB. Here are examples for
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# two of them:
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#
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@@ -55,61 +79,119 @@ class Moab(Package):
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# depends_on('cgns', when='+cgns')
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# depends_on('vtk', when='+vtk')
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depends_on('mpi')
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depends_on('hdf5+mpi')
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depends_on('mpi', when='+mpi')
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depends_on('hdf5', when='+hdf5')
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depends_on('hdf5+mpi', when='+hdf5+mpi')
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depends_on('netcdf', when='+netcdf')
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depends_on('netcdf+mpi', when='+netcdf')
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depends_on('metis')
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depends_on('parmetis')
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depends_on('zoltan')
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depends_on('zoltan~fortran', when='~fortran')
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depends_on('parallel-netcdf', when='+pnetcdf')
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depends_on('cgm', when='+cgm')
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depends_on('metis', when='+metis')
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depends_on('parmetis', when='+parmetis')
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# FIXME it seems that zoltan needs to be built without fortran
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depends_on('zoltan~fortran', when='+zoltan')
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def install(self, spec, prefix):
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def configure_args(self):
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spec = self.spec
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options = [
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'--prefix=%s' % prefix,
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'--enable-optimize',
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'--disable-tools',
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'--disable-mbconvert',
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'--disable-hexmodops',
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'--disable-vtkMOABReader',
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'--disable-mbsize',
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'--disable-mbskin',
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'--disable-mbtagprop',
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'--disable-mbmem',
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'--disable-spheredecomp',
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'--disable-mbsurfplot',
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'--disable-mbpart',
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'--disable-dagmc',
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'--disable-gsets',
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'--disable-mbmerge',
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'--disable-mbdepth',
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'--disable-mbcoupler',
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'--disable-mcnpmit',
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'--disable-refiner',
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'--disable-h5mtools',
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'--disable-mbcslam',
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'--disable-mbquality',
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'--disable-ahf',
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'--disable-mbumr',
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'--disable-imesh',
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'--with-pic',
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'--with-mpi=%s' % spec['mpi'].prefix,
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'--with-hdf5=%s' % spec['hdf5'].prefix,
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'--with-parmetis=%s' % spec['parmetis'].prefix,
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'--with-zoltan=%s' % spec['zoltan'].prefix,
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'--without-vtk',
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'CXX=%s' % spec['mpi'].mpicxx,
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'CC=%s' % spec['mpi'].mpicc,
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'FC=%s' % spec['mpi'].mpifc]
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'--without-vtk'
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]
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if '+mpi' in spec:
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options.extend([
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'--with-mpi=%s' % spec['mpi'].prefix,
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'CXX=%s' % spec['mpi'].mpicxx,
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'CC=%s' % spec['mpi'].mpicc,
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'FC=%s' % spec['mpi'].mpifc
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])
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if '+parmetis' in spec:
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options.append('--with-parmetis=%s' % spec['parmetis'].prefix)
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else:
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options.append('--without-parmetis')
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# FIXME: --without-mpi does not configure right
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# else:
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# options.append('--without-mpi')
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if '+hdf5' in spec:
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options.append('--with-hdf5=%s' % spec['hdf5'].prefix)
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else:
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options.append('--without-hdf5')
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if '+netcdf' in spec:
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options.append('--with-netcdf=%s' % spec['netcdf'].prefix)
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else:
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options.append('--without-netcdf')
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if '+pnetcdf' in spec:
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options.append('--with-pnetcdf=%s'
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% spec['parallel-netcdf'].prefix)
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else:
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options.append('--without-pnetcdf')
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if '+cgm' in spec:
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options.append('--with-cgm=%s' % spec['cgm'].prefix)
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if '+irel' in spec:
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options.append('--enable-irel')
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else:
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options.append('--disable-irel')
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else:
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options.append('--without-cgm')
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if '+fbigeom' in spec:
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options.append('--enable-fbigeom')
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else:
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options.append('--disable-fbigeom')
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if '+coupler' in spec:
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options.append('--enable-mbcoupler')
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else:
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options.append('--disable-mbcoupler')
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if '+metis' in spec:
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options.append('--with-metis=%s' % spec['metis'].prefix)
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else:
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options.append('--without-metis')
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if '+parmetis' in spec:
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options.append('--with-parmetis=%s' % spec['parmetis'].prefix)
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else:
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options.append('--without-parmetis')
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if '+zoltan' in spec:
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options.append('--with-zoltan=%s' % spec['zoltan'].prefix)
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else:
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options.append('--without-zoltan')
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if '+debug' in spec:
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options.append('--enable-debug')
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else:
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options.append('--disable-debug')
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# FIXME it seems that with cgm and shared, we have a link
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# issue in tools/geometry
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if '+shared' in spec:
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options.append('--enable-shared')
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else:
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options.append('--disable-shared')
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if '~fortran' in spec:
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options.append('--disable-fortran')
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if '+shared' in spec:
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options.append('--enable-shared')
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if '+netcdf' in spec:
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options.append('--with-netcdf=%s' % spec['netcdf'].prefix)
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else:
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options.append('--enable-fortran')
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configure(*options)
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make()
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make('install')
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return options
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# FIXME Run the install phase with -j 1. There seems to be a problem with
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# parallel installations of examples
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def install(self, spec, prefix):
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make('install', parallel=False)
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