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# Copyright 2013-2024 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 Motioncor2(Package):
"""MotionCor2 is a multi-GPU program that corrects beam-induced sample
motion recorded on dose fractionated movie stacks. It implements a robust
iterative alignment algorithm that delivers precise measurement and
correction of both global and non-uniform local motions at
single pixel level, suitable for both single-particle and
tomographic images. MotionCor2 is sufficiently fast
to keep up with automated data collection."""
homepage = "http://msg.ucsf.edu/em/software"
manual_download = True
version("1.4.7", sha256="8c33969b10916835b55f14f3c370f67ebe5c4b2a9df9ec487c5251710f038e6b")
# None of the below are available for download
version(
"1.1.0",
sha256="6e37e7ed63a9f0aab5d794b2604d5ba79333960bb9440a1a218630b03dbeaeac",
deprecated=True,
)
version(
"1.0.5",
sha256="4efa55af25644bcff1ca7882419267b8c094c9cc6155b37d2c204b154c56f5a8",
url="http://msg.ucsf.edu/MotionCor2/MotionCor2-1.0.5.tar.gz",
deprecated=True,
)
version(
"1.0.4",
sha256="c75738160ac18d3f27c33677e78e63313d8ec2b023b5a46173428c3fa0451a94",
url="http://msg.ucsf.edu/MotionCor2/MotionCor2-1.0.4.tar.gz",
deprecated=True,
)
def url_for_version(self, version):
return "file://{0}/MotionCor2_{1}.zip".format(os.getcwd(), version)
depends_on("cuda@10.2,11.1:11.5", type="run")
depends_on("libtiff", type="run")
def install(self, spec, prefix):
cuda_version = spec["cuda"].version.up_to(2).joined
mkdirp(prefix.bin)
with working_dir("MotionCor2_{0}".format(spec.version)):
install(
"MotionCor2_{0}_Cuda{1}_*".format(spec.version, cuda_version),
join_path(prefix.bin, "MotionCor2"),
)
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