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Update/add packages in the Nextflow ecosystem (#42776)

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Signed-off-by: Dr Marco Claudio De La Pierre <marco.delapierre@gmail.com>
This commit is contained in:
Dr Marco Claudio De La Pierre 2024-02-24 00:53:46 +08:00 committed by GitHub
parent c5b8d5c92a
commit fe07645e3b
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GPG Key ID: B5690EEEBB952194
4 changed files with 125 additions and 0 deletions
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5
var/spack/repos/builtin/packages/nextflow/package.py
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@ -14,6 +14,11 @@ class Nextflow(Package):
maintainers("dialvarezs", "marcodelapierre")
version(
"23.10.1",
sha256="9abc54f1ffb2b834a8135d44300404552d1e27719659cbb635199898677b660a",
expand=False,
)
version(
"23.10.0",
sha256="4b7fba61ecc6d53a6850390bb435455a54ae4d0c3108199f88b16b49e555afdd",

26
var/spack/repos/builtin/packages/nf-seqerakit/package.py Normal file
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@ -0,0 +1,26 @@
# 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)
from spack.package import *
class NfSeqerakit(PythonPackage):
"""A Python wrapper for the Seqera Platform CLI (formerly Tower CLI)."""
homepage = "https://github.com/seqeralabs/seqera-kit"
pypi = "seqerakit/seqerakit-0.4.5.tar.gz"
maintainers("marcodelapierre")
license("Apache-2.0")
version("0.4.5", sha256="792bd4fa53de4b3959929413d1ad8f39e20587971c9c5451419da1ff68cf3f49")
depends_on("nf-tower-cli", type="run")
depends_on("python@3.8:3", type=("build", "run"))
depends_on("py-setuptools", type="build")
depends_on("py-pyyaml@6:", type=("build", "run"))

32
var/spack/repos/builtin/packages/nf-tower-cli/package.py
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@ -19,6 +19,18 @@ class NfTowerCli(Package):
if platform.machine() == "x86_64":
if platform.system() == "Darwin":
version(
"0.9.2",
sha256="e96c036401c21b4c9b0379a4099192161d94f7567ea16313e7147d6f75828394",
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.9.2/tw-osx-x86_64",
expand=False,
)
version(
"0.8.0",
sha256="c32f9ad48a1a49f1aa62a496b253f24423ae361c1309740f22c429de7e9cc75a",
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.8.0/tw-osx-x86_64",
expand=False,
)
version(
"0.7.2",
sha256="b72093af9c8d61e0150eb9d56cedb67afc982d2432221ae0819aaa0c8826ff2b",
@ -50,6 +62,18 @@ class NfTowerCli(Package):
expand=False,
)
elif platform.system() == "Linux":
version(
"0.9.2",
sha256="1b96696219d922aaa1a5e09f4a018b34c38806c134234b7f9bde19c92f04ab64",
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.9.2/tw-linux-x86_64",
expand=False,
)
version(
"0.8.0",
sha256="c0d08bbf3059296e4819d33c6ff9282cfdd4d97087213c2d9aa0b5943ced60f4",
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.8.0/tw-linux-x86_64",
expand=False,
)
version(
"0.7.2",
sha256="a66d1655d2f3d83db160a890e6b3f20f4573978aa9e8ea5d6e505958a2980e72",
@ -80,6 +104,14 @@ class NfTowerCli(Package):
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.6.2/tw-0.6.2-linux-x86_64",
expand=False,
)
elif platform.machine() == "aarch64":
if platform.system() == "Darwin":
version(
"0.9.2",
sha256="31ffa200aea3e70533222cab08a212080b889d933ac7ee2b8ece22c51d3e8c1a",
url="https://github.com/seqeralabs/tower-cli/releases/download/v0.9.2/tw-osx-arm64",
expand=False,
)
def install(self, spec, prefix):
mkdirp(prefix.bin)

62
var/spack/repos/builtin/packages/nf-wave-cli/package.py Normal file
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@ -0,0 +1,62 @@
# 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 platform
from spack.package import *
class NfWaveCli(Package):
"""Command line tool for Wave containers provisioning service."""
homepage = "https://github.com/seqeralabs/wave-cli"
maintainers("marcodelapierre")
if platform.machine() == "x86_64":
if platform.system() == "Darwin":
version(
"1.2.0",
sha256="97152d86d6ffed9e97b4eea1dc369525bdbc9bb19f0fefca79a10cbcbb82c549",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.2.0/wave-1.2.0-macos-x86_64",
expand=False,
)
version(
"1.1.3",
sha256="8f57cfafaefe34a9aadb460e3ddfe911bdcf7a93296e7a00d29983c065366a2f",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.1.3/wave-1.1.3-macos-x86_64",
expand=False,
)
elif platform.system() == "Linux":
version(
"1.2.0",
sha256="12c572ec3384ddc07a623dcff5262398e0f7d50306b9f2bd35f779c7264a1c38",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.2.0/wave-1.2.0-linux-x86_64",
expand=False,
)
version(
"1.1.3",
sha256="953935159a5581e3a078528792651c12212302a609dffafe5a007d36f75049c0",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.1.3/wave-1.1.3-linux-x86_64",
expand=False,
)
elif platform.machine() == "aarch64":
if platform.system() == "Darwin":
version(
"1.2.0",
sha256="813867e931d19f2452a1b8eee52dc976e08f4146001beed755b12ef44de29050",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.2.0/wave-1.2.0-macos-arm64",
expand=False,
)
version(
"1.1.3",
sha256="1ffdf6ff9d49d14ba38f563a57412e9a408e25c273ae9b11575243a032d101ed",
url="https://github.com/seqeralabs/wave-cli/releases/download/v1.1.3/wave-1.1.3-macos-arm64",
expand=False,
)
def install(self, spec, prefix):
mkdirp(prefix.bin)
install(self.stage.archive_file, join_path(prefix.bin, "wave"))
set_executable(join_path(prefix.bin, "wave"))