6e3b016aa2
* NETCDF: Add new versions and update url Added the 4.6.2 version which was recently released. Changed the url to point to the official Unidata site and added option to retrieve master version from git. * NETCDF: checksum and version updates Reverted back to use of previous URL. The `https://github.com/Unidata/netcdf-c/archive/v4.6.2.tar.gz` location is newer, but spack does not seem to be able to access all of the versions at that location -- only goes back to 4.5.0. Since several installations are still providing 4.4.0, thought it best to go back to previous url. However, it looks like the naming convention has changed since 4.6.2, so need to provide explicit url for 4.6.2. Probably best to go to a `url_for_version()` scheme if that naming convention stays in place?
241 lines
10 KiB
Python
241 lines
10 KiB
Python
# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other
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# Spack Project Developers. See the top-level COPYRIGHT file for details.
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#
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# SPDX-License-Identifier: (Apache-2.0 OR MIT)
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from spack import *
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import numbers
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def is_integral(x):
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"""Any integer value"""
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try:
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return isinstance(int(x), numbers.Integral) and not isinstance(x, bool)
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except ValueError:
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return False
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class Netcdf(AutotoolsPackage):
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"""NetCDF is a set of software libraries and self-describing,
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machine-independent data formats that support the creation, access,
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and sharing of array-oriented scientific data."""
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homepage = "http://www.unidata.ucar.edu/software/netcdf"
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git = "https://github.com/Unidata/netcdf-c"
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url = "http://www.gfd-dennou.org/arch/netcdf/unidata-mirror/netcdf-4.6.1.tar.gz"
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version('master', branch='master')
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version('4.6.2', sha256='c37525981167b3cd82d32e1afa3022afb94e59287db5f116c57f5ed4d9c6a638',
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url="https://www.gfd-dennou.org/arch/netcdf/unidata-mirror/netcdf-c-4.6.2.tar.gz")
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version('4.6.1', sha256='89c7957458740b763ae828c345240b8a1d29c2c1fed0f065f99b73181b0b2642')
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version('4.6.0', sha256='4bf05818c1d858224942ae39bfd9c4f1330abec57f04f58b9c3c152065ab3825')
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version('4.5.0', sha256='cbe70049cf1643c4ad7453f86510811436c9580cb7a1684ada2f32b95b00ca79')
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# Version 4.4.1.1 is having problems in tests
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# https://github.com/Unidata/netcdf-c/issues/343
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version('4.4.1.1', sha256='4d44c6f4d02a8faf10ea619bfe1ba8224cd993024f4da12988c7465f663c8cae')
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# netcdf@4.4.1 can crash on you (in real life and in tests). See:
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# https://github.com/Unidata/netcdf-c/issues/282
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version('4.4.1', sha256='8915cc69817f7af6165fbe69a8d1dfe21d5929d7cca9d10b10f568669ec6b342')
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version('4.4.0', sha256='0d40cb7845abd03c363abcd5f57f16e3c0685a0faf8badb2c59867452f6bcf78')
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version('4.3.3.1', sha256='bdde3d8b0e48eed2948ead65f82c5cfb7590313bc32c4cf6c6546e4cea47ba19')
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version('4.3.3', sha256='83223ed74423c685a10f6c3cfa15c2d6bf7dc84b46af1e95b9fa862016aaa27e')
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variant('mpi', default=True,
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description='Enable parallel I/O for netcdf-4')
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variant('parallel-netcdf', default=False,
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description='Enable parallel I/O for classic files')
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variant('hdf4', default=False, description='Enable HDF4 support')
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variant('pic', default=True,
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description='Produce position-independent code (for shared libs)')
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variant('shared', default=True, description='Enable shared library')
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variant('dap', default=False, description='Enable DAP support')
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# It's unclear if cdmremote can be enabled if '--enable-netcdf-4' is passed
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# to the configure script. Since netcdf-4 support is mandatory we comment
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# this variant out.
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# variant('cdmremote', default=False,
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# description='Enable CDM Remote support')
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# These variants control the number of dimensions (i.e. coordinates and
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# attributes) and variables (e.g. time, entity ID, number of coordinates)
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# that can be used in any particular NetCDF file.
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variant(
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'maxdims',
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default=1024,
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description='Defines the maximum dimensions of NetCDF files.',
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values=is_integral
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)
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variant(
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'maxvars',
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default=8192,
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description='Defines the maximum variables of NetCDF files.',
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values=is_integral
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)
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depends_on("m4", type='build')
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depends_on("hdf", when='+hdf4')
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# curl 7.18.0 or later is required:
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# http://www.unidata.ucar.edu/software/netcdf/docs/getting_and_building_netcdf.html
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depends_on("curl@7.18.0:", when='+dap')
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# depends_on("curl@7.18.0:", when='+cdmremote')
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depends_on('parallel-netcdf', when='+parallel-netcdf')
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# We need to build with MPI wrappers if any of the two
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# parallel I/O features is enabled:
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# http://www.unidata.ucar.edu/software/netcdf/docs/getting_and_building_netcdf.html#build_parallel
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depends_on('mpi', when='+mpi')
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depends_on('mpi', when='+parallel-netcdf')
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# zlib 1.2.5 or later is required for netCDF-4 compression:
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# http://www.unidata.ucar.edu/software/netcdf/docs/getting_and_building_netcdf.html
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depends_on("zlib@1.2.5:")
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# High-level API of HDF5 1.8.9 or later is required for netCDF-4 support:
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# http://www.unidata.ucar.edu/software/netcdf/docs/getting_and_building_netcdf.html
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depends_on('hdf5@1.8.9:+hl')
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# Starting version 4.4.0, it became possible to disable parallel I/O even
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# if HDF5 supports it. For previous versions of the library we need
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# HDF5 without mpi support to disable parallel I/O.
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# The following doesn't work if hdf5+mpi by default and netcdf~mpi is
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# specified in packages.yaml
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# depends_on('hdf5~mpi', when='@:4.3~mpi')
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# Thus, we have to introduce a conflict
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conflicts('~mpi', when='@:4.3^hdf5+mpi',
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msg='netcdf@:4.3~mpi requires hdf5~mpi')
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# We need HDF5 with mpi support to enable parallel I/O.
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# The following doesn't work if hdf5~mpi by default and netcdf+mpi is
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# specified in packages.yaml
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# depends_on('hdf5+mpi', when='+mpi')
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# Thus, we have to introduce a conflict
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conflicts('+mpi', when='^hdf5~mpi',
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msg='netcdf+mpi requires hdf5+mpi')
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# NetCDF 4.4.0 and prior have compatibility issues with HDF5 1.10 and later
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# https://github.com/Unidata/netcdf-c/issues/250
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depends_on('hdf5@:1.8.999', when='@:4.4.0')
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# The feature was introduced in version 4.1.2
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# and was removed in version 4.4.0
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# conflicts('+cdmremote', when='@:4.1.1,4.4:')
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# The features were introduced in version 4.1.0
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conflicts('+parallel-netcdf', when='@:4.0')
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conflicts('+hdf4', when='@:4.0')
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def patch(self):
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try:
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max_dims = int(self.spec.variants['maxdims'].value)
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max_vars = int(self.spec.variants['maxvars'].value)
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except (ValueError, TypeError):
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raise TypeError('NetCDF variant values max[dims|vars] must be '
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'integer values.')
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ff = FileFilter(join_path('include', 'netcdf.h'))
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ff.filter(r'^(#define\s+NC_MAX_DIMS\s+)\d+(.*)$',
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r'\1{0}\2'.format(max_dims))
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ff.filter(r'^(#define\s+NC_MAX_VARS\s+)\d+(.*)$',
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r'\1{0}\2'.format(max_vars))
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def configure_args(self):
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cflags = []
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cppflags = []
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ldflags = []
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libs = []
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config_args = ['--enable-v2',
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'--enable-utilities',
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'--enable-static',
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'--enable-largefile',
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'--enable-netcdf-4']
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# The flag was introduced in version 4.1.0
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if self.spec.satisfies('@4.1:'):
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config_args.append('--enable-fsync')
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# The flag was introduced in version 4.3.1
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if self.spec.satisfies('@4.3.1:'):
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config_args.append('--enable-dynamic-loading')
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config_args += self.enable_or_disable('shared')
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if '~shared' in self.spec or '+pic' in self.spec:
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# We don't have shared libraries but we still want it to be
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# possible to use this library in shared builds
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cflags.append(self.compiler.pic_flag)
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config_args += self.enable_or_disable('dap')
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# config_args += self.enable_or_disable('cdmremote')
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# if '+dap' in self.spec or '+cdmremote' in self.spec:
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if '+dap' in self.spec:
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# Make sure Netcdf links against Spack's curl, otherwise it may
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# pick up system's curl, which can give link errors, e.g.:
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# undefined reference to `SSL_CTX_use_certificate_chain_file
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curl = self.spec['curl']
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curl_libs = curl.libs
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libs.append(curl_libs.link_flags)
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ldflags.append(curl_libs.search_flags)
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# TODO: figure out how to get correct flags via headers.cpp_flags
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cppflags.append('-I' + curl.prefix.include)
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if self.spec.satisfies('@4.4:'):
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if '+mpi' in self.spec:
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config_args.append('--enable-parallel4')
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else:
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config_args.append('--disable-parallel4')
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# Starting version 4.1.3, --with-hdf5= and other such configure options
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# are removed. Variables CPPFLAGS, LDFLAGS, and LD_LIBRARY_PATH must be
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# used instead.
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hdf5_hl = self.spec['hdf5:hl']
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cppflags.append(hdf5_hl.headers.cpp_flags)
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ldflags.append(hdf5_hl.libs.search_flags)
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if '+parallel-netcdf' in self.spec:
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config_args.append('--enable-pnetcdf')
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pnetcdf = self.spec['parallel-netcdf']
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cppflags.append(pnetcdf.headers.cpp_flags)
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# TODO: change to pnetcdf.libs.search_flags once 'parallel-netcdf'
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# package gets custom implementation of 'libs'
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ldflags.append('-L' + pnetcdf.prefix.lib)
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else:
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config_args.append('--disable-pnetcdf')
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if '+mpi' in self.spec or '+parallel-netcdf' in self.spec:
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config_args.append('CC=%s' % self.spec['mpi'].mpicc)
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config_args += self.enable_or_disable('hdf4')
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if '+hdf4' in self.spec:
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hdf4 = self.spec['hdf']
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cppflags.append(hdf4.headers.cpp_flags)
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# TODO: change to hdf4.libs.search_flags once 'hdf'
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# package gets custom implementation of 'libs' property.
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ldflags.append('-L' + hdf4.prefix.lib)
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# TODO: change to self.spec['jpeg'].libs.link_flags once the
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# implementations of 'jpeg' virtual package get 'jpeg_libs'
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# property.
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libs.append('-ljpeg')
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if '+szip' in hdf4:
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# This should also come from hdf4.libs
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libs.append('-lsz')
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# Fortran support
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# In version 4.2+, NetCDF-C and NetCDF-Fortran have split.
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# Use the netcdf-fortran package to install Fortran support.
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config_args.append('CFLAGS=' + ' '.join(cflags))
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config_args.append('CPPFLAGS=' + ' '.join(cppflags))
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config_args.append('LDFLAGS=' + ' '.join(ldflags))
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config_args.append('LIBS=' + ' '.join(libs))
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return config_args
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def check(self):
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# h5_test fails when run in parallel
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make('check', parallel=False)
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