# 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)

import os.path

from spack.package import *


class Cromwell(Package):
    """Cromwell is a Workflow Management System geared towards scientific
    workflows"""

    homepage = "https://cromwell.readthedocs.io/"
    url = "https://github.com/broadinstitute/cromwell/releases/download/44/cromwell-44.jar"

    version(
        "85",
        sha256="100f6c61df72b4079b3ad0f03e8f73e6e2c0afe99d212ec8d42faf4bd4de1e23",
        expand=False,
    )
    version(
        "44",
        sha256="8b411673f6b3c835c6031db3094a7404b9a371133794046fd295719d61e56db0",
        expand=False,
    )

    depends_on("java@11", when="@60:", type="run")
    depends_on("java@8", when="@:59", type="run")

    def install(self, spec, prefix):
        mkdirp(prefix.bin)
        jar_file = "cromwell-{0}.jar".format(self.version)
        install(jar_file, prefix.bin)

        # Set up a helper script to call java on the jar file,
        # explicitly codes the path for java and the jar file.
        script_sh = join_path(os.path.dirname(__file__), "cromwell.sh")
        script = prefix.bin.cromwell
        install(script_sh, script)
        set_executable(script)

        # Munge the helper script to explicitly point to java and the
        # jar file.
        java = self.spec["java"].prefix.bin.java
        kwargs = {"ignore_absent": False, "backup": False, "string": False}
        filter_file("^java", java, script, **kwargs)
        filter_file("cromwell.jar", join_path(prefix.bin, jar_file), script, **kwargs)