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star: add 2.7.10 (#38197)

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* star: add 2.7.10
* star: fix building for non-avx2 arch processors
* convert to MakefilePackage, second take at fixing for aarch64
* style

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
This commit is contained in:
George Young
2023-06-15 20:53:32 +01:00
committed by GitHub
parent 2f97c6ead2
commit 1577eb9602
1 changed files with 15 additions and 4 deletions
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17
var/spack/repos/builtin/packages/star/package.py
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@@ -6,12 +6,14 @@
from spack.package import * from spack.package import *
class Star(Package): class Star(MakefilePackage):
"""STAR is an ultrafast universal RNA-seq aligner.""" """STAR is an ultrafast universal RNA-seq aligner."""
homepage = "https://github.com/alexdobin/STAR" homepage = "https://github.com/alexdobin/STAR"
url = "https://github.com/alexdobin/STAR/archive/2.7.6a.tar.gz" url = "https://github.com/alexdobin/STAR/archive/2.7.6a.tar.gz"
version("2.7.10b", sha256="0d1b71de6c5be1c5d90b32130d2abcd5785a4fc7c1e9bf19cc391947f2dc46e5")
version("2.7.10a", sha256="af0df8fdc0e7a539b3ec6665dce9ac55c33598dfbc74d24df9dae7a309b0426a")
version("2.7.6a", sha256="9320797c604673debea0fe8f2e3762db364915cc59755de1a0d87c8018f97d51") version("2.7.6a", sha256="9320797c604673debea0fe8f2e3762db364915cc59755de1a0d87c8018f97d51")
version("2.7.0e", sha256="2fc9d9103bd02811904d41e3a3d50e47c7de17cb55c3b4880ea5f39300a9ba0d") version("2.7.0e", sha256="2fc9d9103bd02811904d41e3a3d50e47c7de17cb55c3b4880ea5f39300a9ba0d")
version("2.7.0d", sha256="7a757478868dc73fe7619bf6ea302dd642bd30e1c8c1fb4acdbe7fa151cf9fd1") version("2.7.0d", sha256="7a757478868dc73fe7619bf6ea302dd642bd30e1c8c1fb4acdbe7fa151cf9fd1")
@@ -33,9 +35,18 @@ class Star(Package):
depends_on("zlib") depends_on("zlib")
def install(self, spec, prefix): build_directory = "source"
with working_dir("source"):
def edit(self, spec, prefix):
if "avx2" not in spec.target:
env["CXXFLAGS_SIMD"] = ""
def build(self, spec, prefix):
with working_dir(self.build_directory):
make("STAR", "STARlong") make("STAR", "STARlong")
def install(self, spec, prefix):
mkdirp(prefix.bin) mkdirp(prefix.bin)
with working_dir(self.build_directory):
install("STAR", prefix.bin) install("STAR", prefix.bin)
install("STARlong", prefix.bin) install("STARlong", prefix.bin)