54 lines
1.8 KiB
Python
54 lines
1.8 KiB
Python
# Copyright Spack Project Developers. See 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.package import *
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class UcscBedgraphtobigwig(Package):
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"""Convert a bedGraph file to bigWig format."""
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homepage = "http://hgdownload.cse.ucsc.edu/admin/exe/"
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url = "https://hgdownload.cse.ucsc.edu/admin/exe/userApps.archive/userApps.v445.src.tgz"
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maintainers("pabloaledo")
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version("449", sha256="b5a86863d6cfe2120f6c796a13b1572ad05b22622f6534b95c9d26ccbede09b7")
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version("445", sha256="c7abb5db6a5e16a79aefcee849d2b59dbc71ee112ca1e41fea0afb25229cf56c")
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depends_on("c", type="build") # generated
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depends_on("cxx", type="build") # generated
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depends_on("libpng")
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depends_on("uuid")
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depends_on("gmake")
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depends_on("openssl")
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depends_on("zlib-api")
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# This package has known issues installing with the latest MySQL because
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# MySQL removed the type my_bool, while mariadb didn't.
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# https://groups.google.com/a/soe.ucsc.edu/g/genome/c/mIT6fe9l99g
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depends_on("mysql-client")
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conflicts("^mysql@8.0.0:")
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def setup_build_environment(self, env):
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env.set("MYSQLLIBS", "-lmysqlclient")
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env.set("L", "-lssl")
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env.set("BINDIR", "bin")
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def install(self, spec, prefix):
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with working_dir("kent/src/lib"):
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make()
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with working_dir("kent/src/htslib"):
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make()
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with working_dir("kent/src/jkOwnLib"):
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make()
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with working_dir("kent/src/hg/lib"):
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make()
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with working_dir("kent/src/hg/lib"):
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make()
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with working_dir("kent/src/utils/bedGraphToBigWig"):
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mkdirp(prefix.bin)
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mkdirp("bin")
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make()
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make("install")
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install("bin/bedGraphToBigWig", prefix.bin)
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