# Copyright 2013-2023 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.package import *


class Star(MakefilePackage):
    """STAR is an ultrafast universal RNA-seq aligner."""

    homepage = "https://github.com/alexdobin/STAR"
    url = "https://github.com/alexdobin/STAR/archive/2.7.6a.tar.gz"

    license("MIT")

    version("2.7.10b", sha256="0d1b71de6c5be1c5d90b32130d2abcd5785a4fc7c1e9bf19cc391947f2dc46e5")
    version("2.7.10a", sha256="af0df8fdc0e7a539b3ec6665dce9ac55c33598dfbc74d24df9dae7a309b0426a")
    version("2.7.6a", sha256="9320797c604673debea0fe8f2e3762db364915cc59755de1a0d87c8018f97d51")
    version("2.7.0e", sha256="2fc9d9103bd02811904d41e3a3d50e47c7de17cb55c3b4880ea5f39300a9ba0d")
    version("2.7.0d", sha256="7a757478868dc73fe7619bf6ea302dd642bd30e1c8c1fb4acdbe7fa151cf9fd1")
    version("2.6.1b", sha256="1bba5b26c1e6e9a7aca8473a99dbf37bad1dbdd0a589402448e278553bb6b3da")
    version("2.6.1a", sha256="dc87357211432c05123ce49966aae712dec590cbe27c1fd0193c3aeb8d4abe4b")
    version("2.6.0c", sha256="bebba6cc72da302429c44c20f3b07bdde6b0ddf33e538a99e297f1d342070387")
    version("2.6.0b", sha256="1ebbecbb698a3de95990b35fe386189a2c00b07cd9d2d4e017ab8234e7dc042e")
    version("2.6.0a", sha256="a6b0dd1918e1961eebec71e6c7c3c8e632f66d10e0620aa09c0710e2ab279179")
    version("2.5.4b", sha256="bfa6ccd3b7b3878155a077a9c15eec5490dffad8e077ac93abe6f9bfa75bb2b4")
    version("2.5.4a", sha256="17b02703cdd580c9fd426a14f20712ea252d32a4ded804eef759029b600e3afb")
    version("2.5.3a", sha256="2a258e77cda103aa293e528f8597f25dc760cba188d0a7bc7c9452f4698e7c04")
    version("2.5.2b", sha256="f88b992740807ab10f2ac3b83781bf56951617f210001fab523f6480d0b546d9")
    version("2.5.2a", sha256="2a372d9bcab1dac8d35cbbed3f0ab58291e4fbe99d6c1842b094ba7449d55476")
    version(
        "2.4.2a",
        sha256="ac166d190c0fd34bf3418a5640050b0e7734d279813e02daa013d0924fb579b0",
        url="https://github.com/alexdobin/STAR/archive/STAR_2.4.2a.tar.gz",
    )

    depends_on("zlib-api")

    build_directory = "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")

    def install(self, spec, prefix):
        mkdirp(prefix.bin)
        with working_dir(self.build_directory):
            install("STAR", prefix.bin)
            install("STARlong", prefix.bin)