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# 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
from spack.package import *
class Figtree(Package):
"""FigTree is designed as a graphical viewer of phylogenetic trees and
as a program for producing publication-ready figures. As with most of
my programs, it was written for my own needs so may not be as polished
and feature-complete as a commercial program. In particular it is
designed to display summarized and annotated trees produced by BEAST."""
homepage = "https://github.com/rambaut/figtree"
url = "https://github.com/rambaut/figtree/releases/download/v1.4.3/FigTree_v1.4.3.tgz"
version("1.4.4", sha256="529b867657b29e369cf81cd361e6a76bd713d488a63b91932df2385800423aa8")
version("1.4.3", sha256="f497d4dd3a6d220f6b62495b6f47a12ade50d87dbd8d6089f168e94d202f937b")
depends_on("java", type="run")
def patch(self):
# we have to change up the executable to point to the right program
filter_file(
"lib/figtree.jar",
join_path(self.spec.prefix.lib, "figtree.jar"),
"bin/figtree",
string=True,
)
# also set proper executable flags
os.chmod("bin/figtree", 0o775)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install_tree("bin", prefix.bin)
mkdirp(prefix.lib)
install_tree("lib", prefix.lib)
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