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# Copyright 2013-2018 Lawrence Livermore National Security, LLC and other
# Spack Project Developers. See the top-level COPYRIGHT file for details.
#
# SPDX-License-Identifier: (Apache-2.0 OR MIT)
from spack import *
class NcbiToolkit(AutotoolsPackage):
"""NCBI C++ Toolkit"""
homepage = "https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/"
url = "ftp://ftp.ncbi.nih.gov/toolbox/ncbi_tools++/CURRENT/ncbi_cxx--21_0_0.tar.gz"
version('21_0_0', '14e021e08b1a78ac9cde98d0cab92098')
depends_on('boost@1.35.0:')
depends_on('bzip2')
depends_on('libjpeg')
depends_on('libpng')
depends_on('libtiff')
depends_on('libxml2')
depends_on('libxslt@1.1.14:')
depends_on('lzo')
depends_on('pcre')
depends_on('giflib')
depends_on('sqlite@3.6.6:')
depends_on('zlib')
depends_on('samtools')
depends_on('bamtools')
def configure_args(self):
return ['--without-sybase', '--without-fastcgi']
def patch(self):
with working_dir(join_path('src', 'util', 'image')):
filter_file(r'jpeg_start_compress(&cinfo, true)',
'jpeg_start_compress(&cinfo, TRUE)',
'image_io_jpeg.cpp', string=True)
def build(self, spec, prefix):
compiler_version = self.compiler.version.joined
with working_dir(join_path(
'GCC{0}-DebugMT64'.format(compiler_version), 'build')):
make('all_r')
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