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nextdenovo: new package @2.5.2 (and py-paralleltask) (#39139)

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* py-paralleltask: new package @0.2.2

* adding hidden dependency

* nextdenovo: new package @2.5.2

* style

* Update var/spack/repos/builtin/packages/py-paralleltask/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
This commit is contained in:
George Young 2023-08-03 00:11:18 +01:00 committed by GitHub
parent ba936574fc
commit 41d2161b5b
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2 changed files with 49 additions and 0 deletions
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var/spack/repos/builtin/packages/nextdenovo/package.py Normal file
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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)
from spack.package import *
class Nextdenovo(MakefilePackage):
"""NextDenovo is a string graph-based de novo assembler for long reads."""
homepage = "https://nextdenovo.readthedocs.io/en/latest/index.html"
url = "https://github.com/Nextomics/NextDenovo/archive/refs/tags/2.5.2.tar.gz"
version("2.5.2", sha256="f1d07c9c362d850fd737c41e5b5be9d137b1ef3f1aec369dc73c637790611190")
depends_on("python", type="run")
depends_on("py-paralleltask", type="run")
def edit(self, spec, prefix):
makefile = FileFilter("Makefile")
makefile.filter(r"^TOP_DIR.*", "TOP_DIR={0}".format(self.build_directory))
runfile = FileFilter("nextDenovo")
runfile.filter(r"^SCRIPT_PATH.*", "SCRIPT_PATH = '{0}'".format(prefix))
def install(self, spec, prefix):
install_tree("bin", prefix.bin)
install("nextDenovo", prefix.bin)
install_tree("lib", prefix.lib)

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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)
from spack.package import *
class PyParalleltask(PythonPackage):
"""Paralleltask is a simple and lightweight parallel task engine. It can launch a given
number of tasks from a batch of independent tasks, and keep this number of running tasks
until all tasks are completed."""
homepage = "https://github.com/moold/ParallelTask"
pypi = "Paralleltask/Paralleltask-0.2.2.tar.gz"
version("0.2.2", sha256="f00945e2bd5b6aff9cdc48fbd92aa7b48d23bb530d7f6643ac966fea11a7a9d5")
depends_on("py-setuptools", type="build")
depends_on("py-psutil", type=("build", "run"))